#### All dataset, graphics for thesis
#genus level
### install packages
#BiocManager::install("limma")
#BiocManager::install("ANCOMBC")
#BiocManager::install("Maaslin2")
#BiocManager::install("biomformat")
#install.packages("remotes")
#remotes::install_github("vmikk/metagMisc")
#BiocManager::install("readxl")
#BiocManager::install("mixOmics")
#BiocManager::install("microbiome")
## Load librarys
library(limma)
library(ANCOMBC)
## Warning in check_dep_version(): ABI version mismatch:
## lme4 was built with Matrix ABI version 1
## Current Matrix ABI version is 0
## Please re-install lme4 from source or restore original 'Matrix' package
library(Maaslin2)
library(phyloseq)
library(tidyverse)
## Warning: package 'ggplot2' was built under R version 4.3.3
## Warning: package 'tidyr' was built under R version 4.3.3
## ── Attaching core tidyverse packages ──────────────────────── tidyverse 2.0.0 ──
## ✔ dplyr 1.1.4 ✔ readr 2.1.5
## ✔ forcats 1.0.0 ✔ stringr 1.5.1
## ✔ ggplot2 3.5.0 ✔ tibble 3.2.1
## ✔ lubridate 1.9.3 ✔ tidyr 1.3.1
## ✔ purrr 1.0.2
## ── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ──
## ✖ dplyr::filter() masks stats::filter()
## ✖ dplyr::lag() masks stats::lag()
## ℹ Use the conflicted package (<http://conflicted.r-lib.org/>) to force all conflicts to become errors
library(biomformat)
library(metagMisc)
##
## Attaching package: 'metagMisc'
##
## The following object is masked from 'package:purrr':
##
## some
library(readxl)
library(mixOmics)
## Loading required package: MASS
##
## Attaching package: 'MASS'
##
## The following object is masked from 'package:dplyr':
##
## select
##
## Loading required package: lattice
##
## Loaded mixOmics 6.26.0
## Thank you for using mixOmics!
## Tutorials: http://mixomics.org
## Bookdown vignette: https://mixomicsteam.github.io/Bookdown
## Questions, issues: Follow the prompts at http://mixomics.org/contact-us
## Cite us: citation('mixOmics')
##
##
## Attaching package: 'mixOmics'
##
## The following object is masked from 'package:purrr':
##
## map
library(vegan)
## Warning: package 'vegan' was built under R version 4.3.3
## Loading required package: permute
## This is vegan 2.6-4
library(RColorBrewer)
library(microbiome)
##
## microbiome R package (microbiome.github.com)
##
##
##
## Copyright (C) 2011-2022 Leo Lahti,
## Sudarshan Shetty et al. <microbiome.github.io>
##
##
## Attaching package: 'microbiome'
##
## The following object is masked from 'package:vegan':
##
## diversity
##
## The following object is masked from 'package:metagMisc':
##
## prevalence
##
## The following object is masked from 'package:ggplot2':
##
## alpha
##
## The following object is masked from 'package:base':
##
## transform
#devtools::install_github("jbisanz/qiime2R")
library(devtools)
## Loading required package: usethis
## Warning: package 'usethis' was built under R version 4.3.3
##
## Attaching package: 'devtools'
##
## The following object is masked from 'package:permute':
##
## check
library(qiime2R)
library(tidyverse)
#if (!requireNamespace("devtools", quietly = TRUE)){install.packages("devtools")}
#devtools::install_github("jbisanz/qiime2R")
library(devtools)
library(qiime2R)
library(tidyverse)
library(phyloseq)
#install.packages(c("devtools", "RcppEigen", "RcppParallel", "Rtsne", "ggforce", "units"))
#devtools::install_github('schuyler-smith/phylosmith')
library(phylosmith)
setwd("C:/Users/rowen1/OneDrive - Massey University/CA Reasearch/Masters Project/Thesis data/Kitten D+ datasets_FINAL_17092024")
# Kitten only
Ktaxonomy<-read_qza("KittenOnly_17092024/taxonomy.qza")
KSVs<-read_qza("KittenOnly_17092024/table-12.qza")
Kmetadata <- read_delim("KittenOnly_17092024/kittenOnlyMeta_FINAL.txt")
## Rows: 49 Columns: 31
## ── Column specification ────────────────────────────────────────────────────────
## Delimiter: "\t"
## chr (21): sampleid, litter, sample, sample_type, timing, litter_type, kitten...
## dbl (10): litter_number, age_weaned_wk, age_weaned_day, week, age_wk, age_da...
##
## ℹ Use `spec()` to retrieve the full column specification for this data.
## ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message.
Ktree <- read_qza("KittenOnly_17092024/rooted-tree.qza")
Kshannon <-read_qza("KittenOnly_17092024/core-metrics-results/shannon_vector.qza")
Kphyseq<-qza_to_phyloseq(
taxonomy = "KittenOnly_17092024/taxonomy.qza",
features = "KittenOnly_17092024/table-12.qza",
tree = "KittenOnly_17092024/rooted-tree.qza",
metadata = "KittenOnly_17092024/kittenOnlyMeta_FINAL.txt")
Kphyseq
## phyloseq-class experiment-level object
## otu_table() OTU Table: [ 9337 taxa and 49 samples ]
## sample_data() Sample Data: [ 49 samples by 30 sample variables ]
## tax_table() Taxonomy Table: [ 9337 taxa by 7 taxonomic ranks ]
## phy_tree() Phylogenetic Tree: [ 9337 tips and 9280 internal nodes ]
####----------------------------------------------------------------------------------------------------------
## Normalise
### https://yiluheihei.github.io/microbiomeMarker/reference/normalize-methods.html
#install.packages("microbial")
library(microbial)
##
## Attaching package: 'microbial'
##
## The following object is masked from 'package:microbiome':
##
## richness
##
## The following objects are masked from 'package:phyloseq':
##
## otu_table, phy_tree, psmelt, sample_data, subset_samples,
## subset_taxa, tax_table
Kphyseq_norm <- normalize(Kphyseq, method = "CLR")
#Prune taxa
# Agglomerate taxa at phylum level
Kphyseq_norm_genus <- tax_glom(Kphyseq_norm, taxrank = "Genus")
# Top N taxa
N <- 10
top <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N]
# Calculate relative abundance
Kphyseq_norm_genus_prop <- transform_sample_counts(Kphyseq_norm_genus, function(x) x / sum(x) )
# Subset object to top N taxa
Kphyseq_norm_genus_prop_top <- prune_taxa(top, Kphyseq_norm_genus_prop)
Kphyseq_norm_genus_prop_top
## phyloseq-class experiment-level object
## otu_table() OTU Table: [ 10 taxa and 49 samples ]
## sample_data() Sample Data: [ 49 samples by 30 sample variables ]
## tax_table() Taxonomy Table: [ 10 taxa by 7 taxonomic ranks ]
## phy_tree() Phylogenetic Tree: [ 10 tips and 9 internal nodes ]
Kphyseq_norm_genus_prop
## phyloseq-class experiment-level object
## otu_table() OTU Table: [ 392 taxa and 49 samples ]
## sample_data() Sample Data: [ 49 samples by 30 sample variables ]
## tax_table() Taxonomy Table: [ 392 taxa by 7 taxonomic ranks ]
## phy_tree() Phylogenetic Tree: [ 392 tips and 391 internal nodes ]
#### Sample type combined graphics
##Alpha diversity
##https://www.nicholas-ollberding.com/post/introduction-to-phyloseq/
#pdf("Kphyseq_sample type analysis_kitten only.pdf",height=6,width=8,pointsize=15)
head(estimate_richness(Kphyseq))
## Observed Chao1 se.chao1 ACE se.ACE Shannon Simpson
## X10 467 467.0185 0.1416587 467.5622 10.798213 4.084574 0.9702991
## X11 396 396.0476 0.2288603 397.0564 9.942537 3.770247 0.9574684
## X12 413 413.0200 0.1476714 413.5525 10.151408 3.726533 0.9541814
## X13 665 665.0312 0.1824670 665.8932 12.862596 3.763168 0.9420338
## X14 398 398.0164 0.1326892 398.6201 9.968236 3.715440 0.9574987
## X23 548 548.0508 0.2372249 548.8994 11.700436 3.958817 0.9366669
## InvSimpson Fisher
## X10 33.66896 63.80074
## X11 23.51194 54.90173
## X12 21.82518 56.75878
## X13 17.25142 95.84068
## X14 23.52872 55.82140
## X23 15.78952 81.39638
(A <- plot_richness(Kphyseq, x = "sample_type", color = "sample_type", measures = c("Observed", "Shannon", "Chao1")))

A + labs(x = "", y = "Alpha Diversity Measure\n") +
geom_boxplot()

###########################################################################################
#### Code to get to PCA
############### Now remove low abundance taxa:
###############
#tax_level <- "genus" ## analyse at genus level. Not needed with newer version of R.
Kphyseq.tax.level <- tax_glom(Kphyseq, taxrank = "Genus") # Make new phyloseq object at tax level
#??tax_glom
dim(Kphyseq.tax.level@otu_table) # size of table
## [1] 392 49
Kphyseq.tax.level@tax_table # new tax hierarchy - 431 at Genus level
## Taxonomy Table: [392 taxa by 7 taxonomic ranks]:
## Kingdom Phylum
## 738f9b43067c64d7dd19a58e16776ca1 "Archaea" "Euryarchaeota"
## bf3ea7575ee681f6cc071fc10a9b0c9e "Archaea" "Euryarchaeota"
## 81ca8fa4a795e9929b18c343fa7e5d6d "Archaea" "Euryarchaeota"
## fce80713066a40d6d40c78a2bfc701f0 "Bacteria" "Fusobacteria"
## da2d307acbc750e709821f37106a97ee "Bacteria" "Fusobacteria"
## ec4dafd949562cb1c67abf1edb908e45 "Bacteria" "Fusobacteria"
## 937486517cc80db8a7247c8d9cedcb6c "Bacteria" "Fusobacteria"
## 2960c4868268ab63fffd54d389e709f4 "Bacteria" "Tenericutes"
## b1cc0afab8aabe335f3d2183a8f862a8 "Bacteria" "[Thermi]"
## d812033144facb838340db156bc7cddb "Bacteria" "[Thermi]"
## a8d5e516d55e0f840a901a1754faf215 "Bacteria" "[Thermi]"
## b3f7ce9240052a0925ec9e675b5c5801 "Bacteria" "[Thermi]"
## dd2c236c7e7f2b0eca6a81e2ac82e5e9 "Bacteria" "[Thermi]"
## f572830d714e07d0b571ccb4029c577b "Bacteria" "[Thermi]"
## 12c129f217c4ceeb3f4e6992749ee828 "Bacteria" "Armatimonadetes"
## 1ef109986a98fbad2514a0bdde298328 "Bacteria" "Bacteroidetes"
## 550a6c75a980e53ebe63fb821d692cf3 "Bacteria" "Bacteroidetes"
## 08790daac50cd048ed5839225585e108 "Bacteria" "Bacteroidetes"
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## babb2ebb5ca6d5b569dbcd2b4b628198 "Bacteria" "Firmicutes"
## bf2c7a63827bc0b6e73780bd35ef1b24 "Bacteria" "Firmicutes"
## a5d29f17bd1a64838e0d611fbcdd1ff6 "Bacteria" "Firmicutes"
## 3c7e37f4083b0b16aa9124dad86730c7 "Bacteria" "Firmicutes"
## 045316716e32037c41e0b163bf4d7f21 "Bacteria" "Tenericutes"
## d8f53497fb4a7d7ece0196fb9f0a6ab4 "Bacteria" "Proteobacteria"
## 5cfcdb0adca683f26388b734166fa45b "Bacteria" "Proteobacteria"
## d372fbcdc973cce384300297bee0478f "Bacteria" "Proteobacteria"
## ae33131a40a790d5a6e096dfe63a89d8 "Bacteria" "Proteobacteria"
## 187e9220f0344b3c3fa9269ef230fc90 "Bacteria" "Proteobacteria"
## 672ee70217e3b5a9235307922a02c7f8 "Bacteria" "Proteobacteria"
## 5e056cc118579d9d7c95fe778b8ea768 "Bacteria" "Proteobacteria"
## 9b487aae59ee8631f146add439f853d2 "Bacteria" "Proteobacteria"
## 1ae19e5736f0e1386f60a9f7c5d78fde "Bacteria" "Proteobacteria"
## 0ab39039498ea9d85c86e8123448534b "Bacteria" "Proteobacteria"
## 653b92284cc9d8af71788389322f0edd "Bacteria" "Proteobacteria"
## e21fc8d6fb72d301fc9c60d5767cce74 "Bacteria" "Proteobacteria"
## e8707202237b30ae28569d165c85bf19 "Bacteria" "Proteobacteria"
## f889b0623697ffab382195032c9ad941 "Bacteria" "Proteobacteria"
## 305ad58751bd60cdfb4c103af7c099f4 "Bacteria" "Proteobacteria"
## 045260d3560e65d1ed7fc1184847d2ab "Bacteria" "Proteobacteria"
## f31d96a0dc85b58019e54c41729a5705 "Bacteria" "Proteobacteria"
## 801ac076ebb43dd3c879924efd470f18 "Bacteria" "Proteobacteria"
## 7c71dd18459d57c725a3ad9ec173d5db "Bacteria" "Proteobacteria"
## 32391b052e2eb6e82b519a21b917701a "Bacteria" "Proteobacteria"
## 90023f83f20dc4626e11297485a2a460 "Bacteria" "Proteobacteria"
## f79e941eee754904cdc3e35d0786a2bd "Bacteria" "Proteobacteria"
## 892d322ffc17d6b4821998ef14e94580 "Bacteria" "Proteobacteria"
## 9b44baa49a601fb4b6c50c312c901778 "Bacteria" "Proteobacteria"
## cbb4db0a376d0da10f3409b324e572b3 "Bacteria" "Proteobacteria"
## 2926f7065c61a289014e2ef920198e41 "Bacteria" "Proteobacteria"
## b90f313249467f3247b2e178108f56c4 "Bacteria" "Proteobacteria"
## 9fb82f32eb82975222f78b04260eaa3a "Bacteria" "Proteobacteria"
## 23ccd8e52a41d7ca1cd3f7d18bb747b7 "Bacteria" "Proteobacteria"
## 2de364e6eaebebbbb28cca6b2ee5f322 "Bacteria" "Proteobacteria"
## 100dda46eb1c9633ba33d459cad7b6d3 "Bacteria" "Proteobacteria"
## 2027d883259942129f4653bb8773ccbb "Bacteria" "Proteobacteria"
## adce59f1751d627ceab8dd97f4d04c6f "Bacteria" "Proteobacteria"
## 4be80be705379fe624bf4f236868c161 "Bacteria" "Proteobacteria"
## 0c8e4b53a95f728aad2fb84bbd346f97 "Bacteria" "Proteobacteria"
## efbb12b0a03e0073ea00bee12f98b36e "Bacteria" "Proteobacteria"
## 1d38cdf4c8a50b1ea96f2156356de988 "Bacteria" "Proteobacteria"
## 19a6bf2bac2f1eda36feda7b342d2fb5 "Bacteria" "Proteobacteria"
## 27105df2940b9391e03c2d80d7f8b4f5 "Bacteria" "Proteobacteria"
## 939aeb8878169f64a49619412a2f63b0 "Bacteria" "Proteobacteria"
## e0e1b66edfc9669ea0d9a6a802bf2788 "Bacteria" "Proteobacteria"
## d89d2a592c1aca630b867e7ccb9e42a6 "Bacteria" "Proteobacteria"
## 5cf7e8ff515a6a5f6104637fd70423c1 "Bacteria" "Proteobacteria"
## 69a578040fb5a9fff8bc026b7909ba83 "Bacteria" "Proteobacteria"
## fbf60a3c4454aa9de8e64561fccc5345 "Bacteria" "Proteobacteria"
## a1d7db2eb229495c2c82b6983acf7e43 "Bacteria" "Proteobacteria"
## 17fad4dc8312a2057293bfc76005b8de "Bacteria" "Proteobacteria"
## 73dc5d7d8e076fd5a6aeddf13f9ef785 "Bacteria" "Proteobacteria"
## 133220fc9566f8823ba6361d973f7e56 "Bacteria" "Proteobacteria"
## 11a0aa4ba2b9f7349d89e260f7091c23 "Bacteria" "Proteobacteria"
## 8a8122d28d426c268bc33a6036ee1201 "Bacteria" "Proteobacteria"
## 56f83521d186287a1334d08d18f63158 "Bacteria" "Proteobacteria"
## 8987bf7650d847a8389432b1b97b9076 "Bacteria" "Proteobacteria"
## c99ed97ec81f07d7a5bf5e6d39644e78 "Bacteria" "Proteobacteria"
## 79d01cf1a57f4ae9b2100a92fc8ccdba "Bacteria" "Proteobacteria"
## 49d4b7fc67aed6a6c15b45b14ec2d0bd "Bacteria" "Proteobacteria"
## 787102493891f91105723053cb7fa472 "Bacteria" "Proteobacteria"
## 83cfc0b49f561f34323bf84f88479fb0 "Bacteria" "Proteobacteria"
## ed4ce9dc264e70619df3ec76f6551fd6 "Bacteria" "Proteobacteria"
## ac967d4c0addb4554c76a32d34fd6c95 "Bacteria" "Proteobacteria"
## 438f1f8281a645f62d60881fd6b0fa57 "Bacteria" "Proteobacteria"
## 7fc26bb3199fb45b03be3a64086369fc "Bacteria" "Proteobacteria"
## 69c2a11ae089bcd6b89a7e0e820348a0 "Bacteria" "Proteobacteria"
## a1a04d3b99a0830ff52c65019cdbf0ae "Bacteria" "Proteobacteria"
## cb8975338b82a1cde52ea64147755a73 "Bacteria" "Proteobacteria"
## cbcf57af593627cc223bc600b5fb8318 "Bacteria" "Proteobacteria"
## dad64d6402e87f2685829f369810b4da "Bacteria" "Proteobacteria"
## 1d4ba0b34502c3002f4e746231e00d5f "Bacteria" "Proteobacteria"
## a8f07c39cca53fb138e8007eb22aa6a1 "Bacteria" "Proteobacteria"
## 94ea0cf0f0fc7c8f21b14c876a6531e5 "Bacteria" "Proteobacteria"
## d689bc688fc4d75a7bb96dae07c80129 "Bacteria" "Proteobacteria"
## 085877117ce16b29716cb7211f5bf8e0 "Bacteria" "Proteobacteria"
## 6e8ddec699ec02deed4236f0af079318 "Bacteria" "Proteobacteria"
## dc5b0a8becafb8ce2ca3326fc498464b "Bacteria" "Proteobacteria"
## 1d4f2df9b6265023cd7a291fd570f21d "Bacteria" "Proteobacteria"
## 9b740e8e047c98bb45cd4dc582c1a7f9 "Bacteria" "Proteobacteria"
## b8a850e18c6624af91cd225fbdefa983 "Bacteria" "Proteobacteria"
## e648c38b1b9e6300c7919c49b32f2d6f "Bacteria" "Proteobacteria"
## c1889e2c77161500555ea720c5850b61 "Bacteria" "Proteobacteria"
## 9b6c084f78f830b31a28de8180814ae8 "Bacteria" "Proteobacteria"
## 88242931b35810f68ef8dd396bb1d337 "Bacteria" "Proteobacteria"
## 3e155bea0907cecaf362cac4e87deb3d "Bacteria" "Proteobacteria"
## 5e55605eb003f98493386574e7670725 "Bacteria" "Proteobacteria"
## 14f6c55698300e24e20f0af01fc1362a "Bacteria" "Proteobacteria"
## d59a2064644c08d1dadbbce20f19f527 "Bacteria" "Proteobacteria"
## 20e66d19c6e48da230746eb8df4fbee9 "Bacteria" "Proteobacteria"
## db18ee1beaf8b0931f49185b7e87bb50 "Bacteria" "Proteobacteria"
## 5bddc3e2dd40027af0348e3e496b5ede "Bacteria" "Proteobacteria"
## 98c0af570beeb456ca1529e4b7539b6c "Bacteria" "Proteobacteria"
## 325c677d23378529799356c93bdbf138 "Bacteria" "Proteobacteria"
## 184c1055f8871453d4cfb2e063826c79 "Bacteria" "Proteobacteria"
## 8454ff06fc777ee1792f0a92c0a2a3db "Bacteria" "Proteobacteria"
## 139b3a842bac5a67836f791535c71ed2 "Bacteria" "Proteobacteria"
## b43b837314cfb7aef5d3c3fd8e8142b6 "Bacteria" "Proteobacteria"
## 7eaa2034a21192be6ecfaec001f3fa08 "Bacteria" "Proteobacteria"
## c378c39c2cfe843318ac7345e6189014 "Bacteria" "Proteobacteria"
## 6669e651c7a9d2b735e9b7d496508cde "Bacteria" "Proteobacteria"
## 1a7a971d3bcf21592d1ebabf35d100fd "Bacteria" "Proteobacteria"
## dc367720df5c1ae8d78019dc83dd2e0b "Bacteria" "Proteobacteria"
## b8f6759d312f1de655ef951649593ef0 "Bacteria" "Proteobacteria"
## 21b486ea16b34f5b7ce3c8224c331d5e "Bacteria" "Proteobacteria"
## ffcd590944755753b1d8ae88273c731f "Bacteria" "Proteobacteria"
## e522565172c313a3ffddbfc619a2d21b "Bacteria" "Proteobacteria"
## d96b6207fb8725b32db97bec235ce3d0 "Bacteria" "Proteobacteria"
## f8c6df3d56ff7649bc52d0aedbc8e048 "Bacteria" "Acidobacteria"
## 405d0bd8bde3bbf8136655339aaffb32 "Bacteria" "Elusimicrobia"
## 4f7b6df0faabff63004fd8e4aa84143e "Bacteria" "Spirochaetes"
## bd450cfd5b93248abf2a4b1ef4e57ae5 "Bacteria" "Spirochaetes"
## 39832721d381138daa264d1543480827 "Bacteria" "Spirochaetes"
## 8b9d573892bcf008125b830abb494242 "Bacteria" "Nitrospirae"
## 22d355b3fc4793261d21a6f9fb219f49 "Bacteria" "Firmicutes"
## 5b34a5582c8a0efd4e8746a39925b754 "Bacteria" "Firmicutes"
## 7d4cd07fe04d753bf8bcb57dc27f71b1 "Bacteria" "Firmicutes"
## 35f15070627d645a49065e8e30004ee4 "Bacteria" "Firmicutes"
## 7a282fb1eafde33e74e1af68340132cc "Bacteria" "Firmicutes"
## ba38edc1c02e03da1577a96422af5ea0 "Bacteria" "Firmicutes"
## 55e81e6a020e5d9dd500a0ac51b0b283 "Bacteria" "Chloroflexi"
## ad02c5eee2b39f40fac1f608e9a588d2 "Bacteria" "Chloroflexi"
## fe81a158a7d2c78cdb8d494c150dab85 "Bacteria" "Chloroflexi"
## 4088b88f122d38e0d64a1691202e7ee6 "Bacteria" "Chloroflexi"
## 74f297c560f6dad782d11d1b77e88621 "Bacteria" "Chloroflexi"
## 8c3abd03b35e980141bc63102af4480f "Bacteria" "Chloroflexi"
## bf71e327691c4854a681e15b28902a68 "Bacteria" "Chloroflexi"
## 8971ea6436b3f2f9d4f2f4b1bab4ad01 "Bacteria" "[Thermi]"
## 91d9b2a9eb8359f3b10a4ff82eaac7bb "Bacteria" "Fibrobacteres"
## 815fc729fe3c00d325ab760f6bb74b08 "Bacteria" "Gemmatimonadetes"
## be014e630e00e5c6e3f0ca87daa86d1b "Bacteria" "Actinobacteria"
## d443d45b9452b33e2f15317f488a8aff "Bacteria" "Actinobacteria"
## 2bc3044df4d1da6e21cdc4a5aa7f2d7c "Bacteria" "Actinobacteria"
## 1da892b315515f65dcfd83beb0e171bc "Bacteria" "Actinobacteria"
## 84763964b516506d9a5daa198694508a "Bacteria" "Actinobacteria"
## 4cf10e8585dbc2b18d3aa2def42863cd "Bacteria" "Actinobacteria"
## 044575c49355d2dc1dc328d7f4cccf07 "Bacteria" "Actinobacteria"
## 98828518c045dbd013ddf95ed960ff68 "Bacteria" "Actinobacteria"
## 32b519e9b7a8e3207f070845156855a0 "Bacteria" "Actinobacteria"
## e9ab2e1d89fdae4700c6740323ae0d91 "Bacteria" "Actinobacteria"
## 79746a8c7e32d661ecde6164f1de5cbe "Bacteria" "Actinobacteria"
## c97d71471bfaf2c3e54913809ec72f2a "Bacteria" "Actinobacteria"
## 9d2d8b251de60fe5dff92e5e0b4ed3f7 "Bacteria" "Actinobacteria"
## 468b178baa29eebee837710342a0f910 "Bacteria" "Actinobacteria"
## 49ce92d31439808d0d1bea75a00d5bfc "Bacteria" "Actinobacteria"
## 537d15ab7624090dc5c79090bd6a167e "Bacteria" "Actinobacteria"
## 6a817ad430bbcadd29c75840b4fd25c4 "Bacteria" "Actinobacteria"
## 0a8448ddb119a2aa1e0ae86928097f91 "Bacteria" "Actinobacteria"
## 62058d158b24b3fbea81b2be7061d67d "Bacteria" "Actinobacteria"
## f80f713bc2c318c2d2e857fa60324f71 "Bacteria" "Actinobacteria"
## fb96448a13cbd1b35b97f5ea7c9d9f0c "Bacteria" "Actinobacteria"
## 492710d4b2c77ae8a3887b6b67edf135 "Bacteria" "Actinobacteria"
## 399b720f381d18fb6054810664faf3b1 "Bacteria" "Actinobacteria"
## 4e624224b836599c23297d3c0d738f2c "Bacteria" "Actinobacteria"
## fe1f9c1511f40357b7ff3f062a9e9a2f "Bacteria" "Actinobacteria"
## db89f0083e3043374e273f1168399165 "Bacteria" "Actinobacteria"
## 9606f5b31c4365a210f062af56429ba4 "Bacteria" "Actinobacteria"
## cf624c989019ccb39a8316fd82969fca "Bacteria" "Actinobacteria"
## 78bb7782ad610368d38621de127fa83c "Bacteria" "Actinobacteria"
## 7a4040c73abc580073bdb4eb1d74a33d "Bacteria" "Actinobacteria"
## a63e98d52785ca8e8af60d0804af5dae "Bacteria" "Actinobacteria"
## eb07445c23ec6a0baaf838fec7f3f2a5 "Bacteria" "Actinobacteria"
## ef289d460d88b8bf99288c9ccafa3de4 "Bacteria" "Actinobacteria"
## d982cb2e9c52d04a131bfd6bfd57143f "Bacteria" "Actinobacteria"
## f10abcfb58070db144ab557203b15112 "Bacteria" "Actinobacteria"
## 2e3e409911947f6b58055dac76eafff2 "Bacteria" "Actinobacteria"
## 6a8e34c34c852052fbb2ef47f31923cf "Bacteria" "Actinobacteria"
## 69b20ec4a1f82d5d7bfccce73e181144 "Bacteria" "Actinobacteria"
## 2f3464d9017dbcc3c07539e9e6d031d1 "Bacteria" "Actinobacteria"
## 19b23b503d10795479f12bed782e37bf "Bacteria" "Actinobacteria"
## 13c1dc3da2ab678bb67e738463291f41 "Bacteria" "Actinobacteria"
## 0f7c178d133e189017d861892caf1b54 "Bacteria" "Actinobacteria"
## 0c416bb1ef62f13288e440253605f1f6 "Bacteria" "Actinobacteria"
## a9ea27c012d71729be0af434b0135b8f "Bacteria" "Actinobacteria"
## 9910430d69cf086a7a32730d88e36ca1 "Bacteria" "Actinobacteria"
## bc5dc688aca3e85050859ccffb837227 "Bacteria" "Actinobacteria"
## 6cfcb015a00c6f3fb16e6eec63f4a35c "Bacteria" "Actinobacteria"
## 1034ce7814ed4bb5c4506bc6b75eaa3f "Bacteria" "Actinobacteria"
## 9dc76e20f768b3449b07c21ff7377623 "Bacteria" "Actinobacteria"
## 4353875d14dabd7fe11946d21ac50b66 "Bacteria" "Actinobacteria"
## 1c927fead59f669c939d603634ce60e3 "Bacteria" "Actinobacteria"
## cc06b4a0146591e922e1f9c019a63485 "Bacteria" "Actinobacteria"
## c2b4b05dc7cde089c596aaaea2349b57 "Bacteria" "Actinobacteria"
## c0fcac392fda5b2c85f7eff24b4a08ed "Bacteria" "Actinobacteria"
## fdc1a7c3ebe3c43c9205147181cadf6b "Bacteria" "Actinobacteria"
## e229fd918de8f64d13ec2a69bab94a5d "Bacteria" "Actinobacteria"
## af0d699336503dd28940bf80973df0d1 "Bacteria" "Actinobacteria"
## 7beb6afb10d4a33729f38eae58eb86fe "Bacteria" "Actinobacteria"
## 9f213cf8c7852cace5c0bae0997ca479 "Bacteria" "Actinobacteria"
## e5516025a4d9f48a9fd7248989289b17 "Bacteria" "Cyanobacteria"
## 265b94ca9e486aa0e39696dbf1004bab "Bacteria" "Cyanobacteria"
## fc5a4fb7042e9842c36f36e0ab934610 "Bacteria" "Cyanobacteria"
## c11850f778c3ed2aad77e905a962df9f "Bacteria" "Cyanobacteria"
## e1defeafac8215315915a82ed015dcb2 "Bacteria" "Cyanobacteria"
## 4b4b20eeb4a4ccbd441b8d2ef9f31bf7 "Bacteria" "Cyanobacteria"
## 5575e3a3b9446bc439d3a13064c07e21 "Bacteria" "Cyanobacteria"
## 565f359611711ce61076b0f3f8eb9453 "Bacteria" "Cyanobacteria"
## 83196c5429def72c900061a0a8c5b49b "Bacteria" "Cyanobacteria"
## 0c6f8e3cb66947204cae236072a04a74 "Bacteria" "Cyanobacteria"
## 2472bec6d09ab949b643cb1a4f41816b "Bacteria" "Cyanobacteria"
## de5d66672c644945370a3bd62bd2caf4 "Bacteria" "Cyanobacteria"
## 03ca951e561969caf45da606fde67866 "Bacteria" "Cyanobacteria"
## d02aa15268aade892ad5dff83af3e7da "Bacteria" "Cyanobacteria"
## 3cd6ab4607d7c365dfdc11a48bf893c5 "Bacteria" "Cyanobacteria"
## 48b2489d2a8ef650129b144899cdf302 "Bacteria" "Cyanobacteria"
## 0040892ff482919cb88018e43a333cca "Bacteria" "Cyanobacteria"
## a0051aa570b907944f08a912f8bc09fd "Bacteria" "Cyanobacteria"
## d49b641988fea3844b9de1e6ad26ee98 "Bacteria" "Proteobacteria"
## 14e8f8943c5595bbea2cca1cc3c383d0 "Bacteria" "Acidobacteria"
## d9b514bc64139095efef65a654a1d0e2 "Bacteria" "Acidobacteria"
## f54c0eca0d64aade6c60bbad968da659 "Bacteria" "Nitrospirae"
## 39e9884255a81dfa04b47a2b11e3ef5b "Bacteria" "Planctomycetes"
## aa33408e38ea9b07aa856e8e6701b0da "Bacteria" "Acidobacteria"
## cf7bf8f703a8335c0d3018f4604f1cb6 "Bacteria" "Verrucomicrobia"
## 31f232781685558bf9d62e35e8f237f9 "Bacteria" "Verrucomicrobia"
## b8b9f753c83c855cc38aff497e5e89ce "Bacteria" "Verrucomicrobia"
## 85e29914e803ab4d6fb6602bd6b9ff00 "Bacteria" "Verrucomicrobia"
## d37b60c688fcca90997aadce4c64d5a9 "Bacteria" "Verrucomicrobia"
## 107aca9889569069069d195bd8a31697 "Bacteria" "Verrucomicrobia"
## bd3849fc9106f9cdacb9341795c8cb29 "Bacteria" "Verrucomicrobia"
## b5d0c6f1b9e8a8302389f77b79dcda85 "Bacteria" "Verrucomicrobia"
## bd1b5b2bb3a3f6cd721255c7a706da1c "Bacteria" "Verrucomicrobia"
## b9bad8448867f57e6a14c1a242c48774 "Bacteria" "Verrucomicrobia"
## b22df4733817d748ec348e7f3e6b33eb "Bacteria" "Verrucomicrobia"
## 8941145147965d89bfcc4e88c0b9535b "Bacteria" "Verrucomicrobia"
## 0d9178b0087a618145122137d5f02c9d "Bacteria" "Firmicutes"
## 1d44015ea379303fcf6b84e6de3b56fe "Bacteria" "Planctomycetes"
## abbfa75d6cee07b5d473575e6fc31ca6 "Bacteria" "Chlamydiae"
## ebf9bf8eb6025551e0c72b979eadee03 "Bacteria" "Chlamydiae"
## 46d7cb3e670b0a7c6be9f9e87b8a9062 "Bacteria" "Chlamydiae"
## 77ade2a27cd5cf184bc7c566b5e40350 "Bacteria" "Synergistetes"
## a0cdbcafbb2e9ca1d27ec77bf2e8d58d "Bacteria" "Synergistetes"
## a79f2d2819aa6abbb25c3d52f0a6d88e "Bacteria" "Deferribacteres"
## 9640db4284f6de2f96bc6a089999e1d9 "Bacteria" "Spirochaetes"
## Class
## 738f9b43067c64d7dd19a58e16776ca1 "Thermoplasmata"
## bf3ea7575ee681f6cc071fc10a9b0c9e "Methanobacteria"
## 81ca8fa4a795e9929b18c343fa7e5d6d "Methanobacteria"
## fce80713066a40d6d40c78a2bfc701f0 "Fusobacteriia"
## da2d307acbc750e709821f37106a97ee "Fusobacteriia"
## ec4dafd949562cb1c67abf1edb908e45 "Fusobacteriia"
## 937486517cc80db8a7247c8d9cedcb6c "Fusobacteriia"
## 2960c4868268ab63fffd54d389e709f4 "Mollicutes"
## b1cc0afab8aabe335f3d2183a8f862a8 "Deinococci"
## d812033144facb838340db156bc7cddb "Deinococci"
## a8d5e516d55e0f840a901a1754faf215 "Deinococci"
## b3f7ce9240052a0925ec9e675b5c5801 "Deinococci"
## dd2c236c7e7f2b0eca6a81e2ac82e5e9 "Deinococci"
## f572830d714e07d0b571ccb4029c577b "Deinococci"
## 12c129f217c4ceeb3f4e6992749ee828 "[Fimbriimonadia]"
## 1ef109986a98fbad2514a0bdde298328 "Bacteroidia"
## 550a6c75a980e53ebe63fb821d692cf3 "[Saprospirae]"
## 08790daac50cd048ed5839225585e108 "[Saprospirae]"
## 9cbea8ff52e16e14d63f27d5f6f9ee70 "[Saprospirae]"
## 38876d2e7234ac8c535d914e1b89c7f2 "[Saprospirae]"
## 937da713490e1d08e8727822deaeb6ca "[Saprospirae]"
## 32756a7fcc03fdddee0c5b2da35b7940 "Sphingobacteriia"
## 6ba1a63b03ed1667ddedc0813b737f0d "Bacteroidia"
## 23f0414ba47f7c7999f913671268837d "Bacteroidia"
## 5ada85d7be5d55db0cd492bca13b3003 "Bacteroidia"
## a51c11ce94e4c3cedeeeb25ccda839bb "Bacteroidia"
## 183f2ec8041f54e28b279213dab7f242 "Bacteroidia"
## 3ec9a72eea2934c7e20bf5e3840b3935 "Bacteroidia"
## 6549baa73149f7a4de583300732198e3 "Bacteroidia"
## f4871a37ef764e383f723e547ad345d3 "Bacteroidia"
## 12332a0b15374a26f88d178f33975164 "Bacteroidia"
## 6fa2a60e9fa2afc9bb356bff76e8aea7 "Flavobacteriia"
## 7ef9ec92fa1dc4d4b175a2590b38c1e3 "Flavobacteriia"
## 9d0ce3ffd40f17516f311a4f01ce71c3 "Sphingobacteriia"
## 23ebb02f88264051fb546154a4b76f1f "Sphingobacteriia"
## 2c2e6c9719c3d353fc8fc4c29277bf3a "Sphingobacteriia"
## e93b056509933455a642b22131e787f6 "Flavobacteriia"
## 2f4128d15aa3f31e65bb6be743cf2652 "Flavobacteriia"
## 82a38739a3d57c68d7488b32235fd9c8 "Flavobacteriia"
## e87605af38d7adbc36e9bf2ccb4b9ed1 "Flavobacteriia"
## 675f216a655188ee527413d79502e884 "Flavobacteriia"
## fd67289a69cb1b8b911c9c0d5aae561c "Flavobacteriia"
## 0156833a719406d6720169fa7c1a8c4f "Flavobacteriia"
## 394637d50ed3fa18f7ad4e5f459950bf "Flavobacteriia"
## 727cd1eebae3ae24468583a5fd29bf40 "Flavobacteriia"
## fe148c0776bd59b90cb0a4d2f18a7431 "Flavobacteriia"
## 87b5fc5e91a8d3cc174f4741e97756eb "Flavobacteriia"
## 97904005472b49b5a729b1f7470c3bce "Flavobacteriia"
## 0d1d623d430214d67ab7dd50d86923eb "Flavobacteriia"
## e0534df6ab1aeb8c188f3b0768b7d5ed "Flavobacteriia"
## 7f356ca83a2db14690a64a74ef25a18a "Bacteroidia"
## a88bc39d28216b7fea5c260c1eba645b "Bacteroidia"
## df0e399449afea146ca01aff07d5422e "Bacteroidia"
## 3abf10c0fb708bc94c3ea4dd299e0970 "Bacteroidia"
## 22ec7a68d4ffe650f8dd1151196824ae "Bacteroidia"
## 4431ece8c33501e69a7108763af73b9a "Cytophagia"
## 943f60dee4de6bf45e42e9305d688b0c "Cytophagia"
## 2295bf9acbfa418fbcd3b30754f6148e "Cytophagia"
## 0a8e379dd40b23d151f6392ed1a51934 "Cytophagia"
## 4ac7304960d351f3fde8c6b271e02cd1 "Cytophagia"
## 74156312fe86d82180dcebd7fa2f1d3b "Cytophagia"
## a6c1c1db83cc085b6f4410843de68aec "Cytophagia"
## abd4e33c5a5b25b15f743da0ba2d47de "Cytophagia"
## 88063ce6d940ae9490d8f68ebbe70efd "Cytophagia"
## 76750ffa90fdd5952e8570f9a1fc11f9 "Cytophagia"
## 0d81c4844619813dd873a65bcf91b75b "Cytophagia"
## 87ae24a9562a267c0c47df8e04a60f89 "Cytophagia"
## 5e75d3a55ceb4dc7a55910426de76734 "Cytophagia"
## c99b81e959d197f32acce3adc9c4fab5 "Cytophagia"
## 4c16e214394f648bcce3b069ef859388 "Cytophagia"
## bde4c36da80878e658df02d338931982 "Cytophagia"
## 61899b1d726126ee51b7335a9e17ea3f "Cytophagia"
## d2585e354502d89dc5e0a6e923551ec4 "Cytophagia"
## c5a6d0e5a5aec5fb2aeaea82dea15305 "[Rhodothermi]"
## 46546f341eac9b2125a8e152eef86d82 "Mollicutes"
## f39b347d2f6c66682fd9982cae666e88 "Clostridia"
## 9dbb7cbacf6d05c6f914fd172280c3ff "Clostridia"
## 8f9ad93911aa5eaeb33b21f8f7c2c45f "Clostridia"
## d27c33a2c70998d3ea63eb1ff3cb0221 "Clostridia"
## d5167fdceb8a3baf484e932653cce66b "Clostridia"
## 92591f68fc9a379243ba99075a0c1a11 "Clostridia"
## 7b0402e21e2605b6efc8f9ee96439660 "Clostridia"
## 108ec75ebd3d17a56bfabec9ab334e0e "Clostridia"
## 49e2fbc314555e9fd5f1accf0fb91af8 "Clostridia"
## f3f29b983fe8c0dfe37668e9d4ae8bc6 "Clostridia"
## 569418df588c6249c6525811063aacf5 "Clostridia"
## 65a75861ea5af532e70ba307bf70a9a9 "Clostridia"
## bb3291ec469409c1d58c5b0fdc933ec6 "Bacilli"
## ee9bbcdf5eab5edd0596f444214183cc "Clostridia"
## 90fe5379a170a7caa71f8f383f485f2b "Clostridia"
## 0e7f78e494e734305ea59cd0caafa1b8 "Clostridia"
## 95b83723ec29f8943be9bb7d717c5a4b "Clostridia"
## 257742c10ede9357a9f59a3217461ae5 "Clostridia"
## 1db331ef1773d7b27b8e386278202b7e "Clostridia"
## dd5ce8d0b040693d540cb5aaf1b9fb3b "Clostridia"
## 9579cc9ad7e64d3305e8aa5e53c667f7 "Clostridia"
## be88e2bee5866989aa7c16c28646cf50 "Clostridia"
## 059e847d26f267fa3730d112f3014b1f "Clostridia"
## 23a5e6774a168faddfac530ac1033388 "Clostridia"
## f2735c286490a71c359f4d5db6bdd217 "Clostridia"
## ba0596067c4e680406c82c4baa296538 "Clostridia"
## f2def42b08374f35a87be49c511de37a "Clostridia"
## 8302230fee8b0e524dc372e6e97211e1 "Clostridia"
## 8ac67871377691e5f68c2600870352ec "Clostridia"
## 75734bf2678c55d2dbbdffa17417ab89 "Clostridia"
## 198c7b560d46758bcbad890d07833b37 "Clostridia"
## 75bc33d3f4be73b5221a58ddd6e73798 "Clostridia"
## 62a7641b0fd611f2b5f56840e4afe298 "Clostridia"
## 0c438af5dc97a32a49dc6cf46e911b17 "Clostridia"
## f414562b9ba38395a17b663355f405f8 "Clostridia"
## f1d10bfa443393cfe67263894c84e566 "Clostridia"
## d862ff0f8f5c9f39ae13f080aa680bb3 "Clostridia"
## 702add448b05e3087ea6cecea7dd90b4 "Clostridia"
## a3a479ce8ea08a480c9a96d6cd9c2f62 "Clostridia"
## 2546dd1d30f6556190239a0f5c8efad3 "Clostridia"
## 5891492addacafaf26c9ab65b7c17a3f "Clostridia"
## 94f2f98ac7d8d5e8ea731c9c3ee48c86 "Clostridia"
## 61880eb94d6e2c60ff0276bccb67c9ec "Clostridia"
## 0360a498b5585f9028fa802e6b4f7bf5 "Clostridia"
## 135ea3e4d147e2cf6e381bd218ca38c2 "Clostridia"
## 7be1f8896d95573e6ba7523bf6d29546 "Clostridia"
## ab7e93274f5830e83f60e578976747d3 "Clostridia"
## 5ad1971e7c113f850929b1752979a1a5 "Clostridia"
## cb9fe9ff4eb7853282a4d840335b6fc5 "Clostridia"
## d6377ab8698308388991039193fed9e6 "Erysipelotrichi"
## c002515d386833fd7c4969a03a9aebb5 "Erysipelotrichi"
## 99acc08c0d8bfce4ad95740ddf504a83 "Erysipelotrichi"
## 51c88352cb0925e74ba66a7dd7cde265 "Erysipelotrichi"
## a71a5fde3bfe18523396fab08f4e474d "Mollicutes"
## acaa6fe062445b95590d349c619ff73f "Erysipelotrichi"
## 77be883e73ff901aea64b7487a80e245 "Erysipelotrichi"
## 07ed27499a5612e2a730ef4d4a95cae9 "Erysipelotrichi"
## 48ae71b68d6954a54eb355054e9ca62a "Erysipelotrichi"
## eaa57f77edaae985a5784f41ece4ce33 "Bacilli"
## da3fd1a55a332ea87aa1da2b633d54b2 "Bacilli"
## a62e32c83e169200a7222bc5e937b23b "Bacilli"
## bdbe4504d2313c7e46d1e5a1b4c502f3 "Bacilli"
## 86599a57e1dcd7a14bdfd8dacbdb29c4 "Bacilli"
## ff931fa606fa70b98d9cc7339959e1e4 "Bacilli"
## 26d9efc3df990145f38903f8fcf86546 "Bacilli"
## c6f61b95201848ba396fcf8f9f393bd8 "Bacilli"
## 2acd7b47e3bfd5c56047c3922a32dc50 "Bacilli"
## 56a8dc24218d559971fd66bfbc07b25e "Bacilli"
## c8b0264dca035066a4f98e8f5f57a1fd "Bacilli"
## 0ad56849fee2b97ca31f66083120f60a "Bacilli"
## 0080fef6444702a9598894828d7c6480 "Bacilli"
## d24f404d0e184ab79cba846971453bcd "Bacilli"
## 400a504e050fa1e94dbb78a317a91676 "Bacilli"
## b5d49db9d9ccb60a34050267bfcc36fe "Bacilli"
## 2c234c87c5882dd4f414aec10fa936c2 "Bacilli"
## 0f1caf1bbdbe6b2ca659622ee70d0b63 "Bacilli"
## e5c43f196cbe5ab66faa3c4f467a0886 "Bacilli"
## 6b085c4046ac5ebe8ef6ac62d791bea5 "Bacilli"
## c00d929bb5c22936acc74570e3b5bdf6 "Bacilli"
## 1d05ba400871e661d4b6f5d5221ceaa0 "Bacilli"
## 4580887b2b9919823d69f37282c7eb68 "Bacilli"
## 2e398b8d21dc0766b2cf014de5f215f9 "Bacilli"
## babb2ebb5ca6d5b569dbcd2b4b628198 "Bacilli"
## bf2c7a63827bc0b6e73780bd35ef1b24 "Bacilli"
## a5d29f17bd1a64838e0d611fbcdd1ff6 "Bacilli"
## 3c7e37f4083b0b16aa9124dad86730c7 "Bacilli"
## 045316716e32037c41e0b163bf4d7f21 "Mollicutes"
## d8f53497fb4a7d7ece0196fb9f0a6ab4 "Deltaproteobacteria"
## 5cfcdb0adca683f26388b734166fa45b "Epsilonproteobacteria"
## d372fbcdc973cce384300297bee0478f "Epsilonproteobacteria"
## ae33131a40a790d5a6e096dfe63a89d8 "Epsilonproteobacteria"
## 187e9220f0344b3c3fa9269ef230fc90 "Deltaproteobacteria"
## 672ee70217e3b5a9235307922a02c7f8 "Deltaproteobacteria"
## 5e056cc118579d9d7c95fe778b8ea768 "Deltaproteobacteria"
## 9b487aae59ee8631f146add439f853d2 "Deltaproteobacteria"
## 1ae19e5736f0e1386f60a9f7c5d78fde "Deltaproteobacteria"
## 0ab39039498ea9d85c86e8123448534b "Deltaproteobacteria"
## 653b92284cc9d8af71788389322f0edd "Deltaproteobacteria"
## e21fc8d6fb72d301fc9c60d5767cce74 "Deltaproteobacteria"
## e8707202237b30ae28569d165c85bf19 "Deltaproteobacteria"
## f889b0623697ffab382195032c9ad941 "Deltaproteobacteria"
## 305ad58751bd60cdfb4c103af7c099f4 "Deltaproteobacteria"
## 045260d3560e65d1ed7fc1184847d2ab "Deltaproteobacteria"
## f31d96a0dc85b58019e54c41729a5705 "Gammaproteobacteria"
## 801ac076ebb43dd3c879924efd470f18 "Gammaproteobacteria"
## 7c71dd18459d57c725a3ad9ec173d5db "Gammaproteobacteria"
## 32391b052e2eb6e82b519a21b917701a "Gammaproteobacteria"
## 90023f83f20dc4626e11297485a2a460 "Gammaproteobacteria"
## f79e941eee754904cdc3e35d0786a2bd "Gammaproteobacteria"
## 892d322ffc17d6b4821998ef14e94580 "Gammaproteobacteria"
## 9b44baa49a601fb4b6c50c312c901778 "Gammaproteobacteria"
## cbb4db0a376d0da10f3409b324e572b3 "Gammaproteobacteria"
## 2926f7065c61a289014e2ef920198e41 "Gammaproteobacteria"
## b90f313249467f3247b2e178108f56c4 "Gammaproteobacteria"
## 9fb82f32eb82975222f78b04260eaa3a "Gammaproteobacteria"
## 23ccd8e52a41d7ca1cd3f7d18bb747b7 "Gammaproteobacteria"
## 2de364e6eaebebbbb28cca6b2ee5f322 "Gammaproteobacteria"
## 100dda46eb1c9633ba33d459cad7b6d3 "Gammaproteobacteria"
## 2027d883259942129f4653bb8773ccbb "Gammaproteobacteria"
## adce59f1751d627ceab8dd97f4d04c6f "Gammaproteobacteria"
## 4be80be705379fe624bf4f236868c161 "Gammaproteobacteria"
## 0c8e4b53a95f728aad2fb84bbd346f97 "Gammaproteobacteria"
## efbb12b0a03e0073ea00bee12f98b36e "Gammaproteobacteria"
## 1d38cdf4c8a50b1ea96f2156356de988 "Gammaproteobacteria"
## 19a6bf2bac2f1eda36feda7b342d2fb5 "Gammaproteobacteria"
## 27105df2940b9391e03c2d80d7f8b4f5 "Gammaproteobacteria"
## 939aeb8878169f64a49619412a2f63b0 "Gammaproteobacteria"
## e0e1b66edfc9669ea0d9a6a802bf2788 "Gammaproteobacteria"
## d89d2a592c1aca630b867e7ccb9e42a6 "Gammaproteobacteria"
## 5cf7e8ff515a6a5f6104637fd70423c1 "Gammaproteobacteria"
## 69a578040fb5a9fff8bc026b7909ba83 "Gammaproteobacteria"
## fbf60a3c4454aa9de8e64561fccc5345 "Gammaproteobacteria"
## a1d7db2eb229495c2c82b6983acf7e43 "Gammaproteobacteria"
## 17fad4dc8312a2057293bfc76005b8de "Gammaproteobacteria"
## 73dc5d7d8e076fd5a6aeddf13f9ef785 "Gammaproteobacteria"
## 133220fc9566f8823ba6361d973f7e56 "Gammaproteobacteria"
## 11a0aa4ba2b9f7349d89e260f7091c23 "Gammaproteobacteria"
## 8a8122d28d426c268bc33a6036ee1201 "Gammaproteobacteria"
## 56f83521d186287a1334d08d18f63158 "Betaproteobacteria"
## 8987bf7650d847a8389432b1b97b9076 "Betaproteobacteria"
## c99ed97ec81f07d7a5bf5e6d39644e78 "Betaproteobacteria"
## 79d01cf1a57f4ae9b2100a92fc8ccdba "Betaproteobacteria"
## 49d4b7fc67aed6a6c15b45b14ec2d0bd "Betaproteobacteria"
## 787102493891f91105723053cb7fa472 "Betaproteobacteria"
## 83cfc0b49f561f34323bf84f88479fb0 "Gammaproteobacteria"
## ed4ce9dc264e70619df3ec76f6551fd6 "Gammaproteobacteria"
## ac967d4c0addb4554c76a32d34fd6c95 "Gammaproteobacteria"
## 438f1f8281a645f62d60881fd6b0fa57 "Gammaproteobacteria"
## 7fc26bb3199fb45b03be3a64086369fc "Betaproteobacteria"
## 69c2a11ae089bcd6b89a7e0e820348a0 "Betaproteobacteria"
## a1a04d3b99a0830ff52c65019cdbf0ae "Betaproteobacteria"
## cb8975338b82a1cde52ea64147755a73 "Betaproteobacteria"
## cbcf57af593627cc223bc600b5fb8318 "Betaproteobacteria"
## dad64d6402e87f2685829f369810b4da "Betaproteobacteria"
## 1d4ba0b34502c3002f4e746231e00d5f "Betaproteobacteria"
## a8f07c39cca53fb138e8007eb22aa6a1 "Betaproteobacteria"
## 94ea0cf0f0fc7c8f21b14c876a6531e5 "Betaproteobacteria"
## d689bc688fc4d75a7bb96dae07c80129 "Betaproteobacteria"
## 085877117ce16b29716cb7211f5bf8e0 "Gammaproteobacteria"
## 6e8ddec699ec02deed4236f0af079318 "Gammaproteobacteria"
## dc5b0a8becafb8ce2ca3326fc498464b "Gammaproteobacteria"
## 1d4f2df9b6265023cd7a291fd570f21d "Gammaproteobacteria"
## 9b740e8e047c98bb45cd4dc582c1a7f9 "Gammaproteobacteria"
## b8a850e18c6624af91cd225fbdefa983 "Gammaproteobacteria"
## e648c38b1b9e6300c7919c49b32f2d6f "Gammaproteobacteria"
## c1889e2c77161500555ea720c5850b61 "Gammaproteobacteria"
## 9b6c084f78f830b31a28de8180814ae8 "Gammaproteobacteria"
## 88242931b35810f68ef8dd396bb1d337 "Gammaproteobacteria"
## 3e155bea0907cecaf362cac4e87deb3d "Gammaproteobacteria"
## 5e55605eb003f98493386574e7670725 "Gammaproteobacteria"
## 14f6c55698300e24e20f0af01fc1362a "Deltaproteobacteria"
## d59a2064644c08d1dadbbce20f19f527 "Alphaproteobacteria"
## 20e66d19c6e48da230746eb8df4fbee9 "Alphaproteobacteria"
## db18ee1beaf8b0931f49185b7e87bb50 "Alphaproteobacteria"
## 5bddc3e2dd40027af0348e3e496b5ede "Alphaproteobacteria"
## 98c0af570beeb456ca1529e4b7539b6c "Alphaproteobacteria"
## 325c677d23378529799356c93bdbf138 "Alphaproteobacteria"
## 184c1055f8871453d4cfb2e063826c79 "Alphaproteobacteria"
## 8454ff06fc777ee1792f0a92c0a2a3db "Alphaproteobacteria"
## 139b3a842bac5a67836f791535c71ed2 "Alphaproteobacteria"
## b43b837314cfb7aef5d3c3fd8e8142b6 "Alphaproteobacteria"
## 7eaa2034a21192be6ecfaec001f3fa08 "Alphaproteobacteria"
## c378c39c2cfe843318ac7345e6189014 "Alphaproteobacteria"
## 6669e651c7a9d2b735e9b7d496508cde "Alphaproteobacteria"
## 1a7a971d3bcf21592d1ebabf35d100fd "Alphaproteobacteria"
## dc367720df5c1ae8d78019dc83dd2e0b "Alphaproteobacteria"
## b8f6759d312f1de655ef951649593ef0 "Alphaproteobacteria"
## 21b486ea16b34f5b7ce3c8224c331d5e "Alphaproteobacteria"
## ffcd590944755753b1d8ae88273c731f "Alphaproteobacteria"
## e522565172c313a3ffddbfc619a2d21b "Alphaproteobacteria"
## d96b6207fb8725b32db97bec235ce3d0 "Alphaproteobacteria"
## f8c6df3d56ff7649bc52d0aedbc8e048 "Acidobacteriia"
## 405d0bd8bde3bbf8136655339aaffb32 "Elusimicrobia"
## 4f7b6df0faabff63004fd8e4aa84143e "Spirochaetes"
## bd450cfd5b93248abf2a4b1ef4e57ae5 "Spirochaetes"
## 39832721d381138daa264d1543480827 "Spirochaetes"
## 8b9d573892bcf008125b830abb494242 "Nitrospira"
## 22d355b3fc4793261d21a6f9fb219f49 "Clostridia"
## 5b34a5582c8a0efd4e8746a39925b754 "Clostridia"
## 7d4cd07fe04d753bf8bcb57dc27f71b1 "Bacilli"
## 35f15070627d645a49065e8e30004ee4 "Bacilli"
## 7a282fb1eafde33e74e1af68340132cc "Bacilli"
## ba38edc1c02e03da1577a96422af5ea0 "Bacilli"
## 55e81e6a020e5d9dd500a0ac51b0b283 "Ktedonobacteria"
## ad02c5eee2b39f40fac1f608e9a588d2 "Anaerolineae"
## fe81a158a7d2c78cdb8d494c150dab85 "Anaerolineae"
## 4088b88f122d38e0d64a1691202e7ee6 "Anaerolineae"
## 74f297c560f6dad782d11d1b77e88621 "Chloroflexi"
## 8c3abd03b35e980141bc63102af4480f "Chloroflexi"
## bf71e327691c4854a681e15b28902a68 "Chloroflexi"
## 8971ea6436b3f2f9d4f2f4b1bab4ad01 "Deinococci"
## 91d9b2a9eb8359f3b10a4ff82eaac7bb "Fibrobacteria"
## 815fc729fe3c00d325ab760f6bb74b08 "Gemmatimonadetes"
## be014e630e00e5c6e3f0ca87daa86d1b "Coriobacteriia"
## d443d45b9452b33e2f15317f488a8aff "Coriobacteriia"
## 2bc3044df4d1da6e21cdc4a5aa7f2d7c "Coriobacteriia"
## 1da892b315515f65dcfd83beb0e171bc "Coriobacteriia"
## 84763964b516506d9a5daa198694508a "Coriobacteriia"
## 4cf10e8585dbc2b18d3aa2def42863cd "Coriobacteriia"
## 044575c49355d2dc1dc328d7f4cccf07 "Coriobacteriia"
## 98828518c045dbd013ddf95ed960ff68 "Thermoleophilia"
## 32b519e9b7a8e3207f070845156855a0 "Thermoleophilia"
## e9ab2e1d89fdae4700c6740323ae0d91 "Thermoleophilia"
## 79746a8c7e32d661ecde6164f1de5cbe "Nitriliruptoria"
## c97d71471bfaf2c3e54913809ec72f2a "Actinobacteria"
## 9d2d8b251de60fe5dff92e5e0b4ed3f7 "Actinobacteria"
## 468b178baa29eebee837710342a0f910 "Actinobacteria"
## 49ce92d31439808d0d1bea75a00d5bfc "Actinobacteria"
## 537d15ab7624090dc5c79090bd6a167e "Actinobacteria"
## 6a817ad430bbcadd29c75840b4fd25c4 "Actinobacteria"
## 0a8448ddb119a2aa1e0ae86928097f91 "Actinobacteria"
## 62058d158b24b3fbea81b2be7061d67d "Actinobacteria"
## f80f713bc2c318c2d2e857fa60324f71 "Actinobacteria"
## fb96448a13cbd1b35b97f5ea7c9d9f0c "Actinobacteria"
## 492710d4b2c77ae8a3887b6b67edf135 "Actinobacteria"
## 399b720f381d18fb6054810664faf3b1 "Actinobacteria"
## 4e624224b836599c23297d3c0d738f2c "Actinobacteria"
## fe1f9c1511f40357b7ff3f062a9e9a2f "Actinobacteria"
## db89f0083e3043374e273f1168399165 "Actinobacteria"
## 9606f5b31c4365a210f062af56429ba4 "Actinobacteria"
## cf624c989019ccb39a8316fd82969fca "Actinobacteria"
## 78bb7782ad610368d38621de127fa83c "Actinobacteria"
## 7a4040c73abc580073bdb4eb1d74a33d "Actinobacteria"
## a63e98d52785ca8e8af60d0804af5dae "Actinobacteria"
## eb07445c23ec6a0baaf838fec7f3f2a5 "Actinobacteria"
## ef289d460d88b8bf99288c9ccafa3de4 "Actinobacteria"
## d982cb2e9c52d04a131bfd6bfd57143f "Actinobacteria"
## f10abcfb58070db144ab557203b15112 "Actinobacteria"
## 2e3e409911947f6b58055dac76eafff2 "Actinobacteria"
## 6a8e34c34c852052fbb2ef47f31923cf "Actinobacteria"
## 69b20ec4a1f82d5d7bfccce73e181144 "Actinobacteria"
## 2f3464d9017dbcc3c07539e9e6d031d1 "Actinobacteria"
## 19b23b503d10795479f12bed782e37bf "Actinobacteria"
## 13c1dc3da2ab678bb67e738463291f41 "Actinobacteria"
## 0f7c178d133e189017d861892caf1b54 "Actinobacteria"
## 0c416bb1ef62f13288e440253605f1f6 "Actinobacteria"
## a9ea27c012d71729be0af434b0135b8f "Actinobacteria"
## 9910430d69cf086a7a32730d88e36ca1 "Actinobacteria"
## bc5dc688aca3e85050859ccffb837227 "Actinobacteria"
## 6cfcb015a00c6f3fb16e6eec63f4a35c "Actinobacteria"
## 1034ce7814ed4bb5c4506bc6b75eaa3f "Actinobacteria"
## 9dc76e20f768b3449b07c21ff7377623 "Actinobacteria"
## 4353875d14dabd7fe11946d21ac50b66 "Actinobacteria"
## 1c927fead59f669c939d603634ce60e3 "Actinobacteria"
## cc06b4a0146591e922e1f9c019a63485 "Actinobacteria"
## c2b4b05dc7cde089c596aaaea2349b57 "Actinobacteria"
## c0fcac392fda5b2c85f7eff24b4a08ed "Actinobacteria"
## fdc1a7c3ebe3c43c9205147181cadf6b "Actinobacteria"
## e229fd918de8f64d13ec2a69bab94a5d "Actinobacteria"
## af0d699336503dd28940bf80973df0d1 "Actinobacteria"
## 7beb6afb10d4a33729f38eae58eb86fe "Acidimicrobiia"
## 9f213cf8c7852cace5c0bae0997ca479 "Acidimicrobiia"
## e5516025a4d9f48a9fd7248989289b17 "Oscillatoriophycideae"
## 265b94ca9e486aa0e39696dbf1004bab "Synechococcophycideae"
## fc5a4fb7042e9842c36f36e0ab934610 "Oscillatoriophycideae"
## c11850f778c3ed2aad77e905a962df9f "Oscillatoriophycideae"
## e1defeafac8215315915a82ed015dcb2 "Nostocophycideae"
## 4b4b20eeb4a4ccbd441b8d2ef9f31bf7 "Nostocophycideae"
## 5575e3a3b9446bc439d3a13064c07e21 "Nostocophycideae"
## 565f359611711ce61076b0f3f8eb9453 "Nostocophycideae"
## 83196c5429def72c900061a0a8c5b49b "Nostocophycideae"
## 0c6f8e3cb66947204cae236072a04a74 "Oscillatoriophycideae"
## 2472bec6d09ab949b643cb1a4f41816b "Synechococcophycideae"
## de5d66672c644945370a3bd62bd2caf4 "Synechococcophycideae"
## 03ca951e561969caf45da606fde67866 "Chloroplast"
## d02aa15268aade892ad5dff83af3e7da "Chloroplast"
## 3cd6ab4607d7c365dfdc11a48bf893c5 "Oscillatoriophycideae"
## 48b2489d2a8ef650129b144899cdf302 "Chloroplast"
## 0040892ff482919cb88018e43a333cca "Chloroplast"
## a0051aa570b907944f08a912f8bc09fd "Chloroplast"
## d49b641988fea3844b9de1e6ad26ee98 "Alphaproteobacteria"
## 14e8f8943c5595bbea2cca1cc3c383d0 "Holophagae"
## d9b514bc64139095efef65a654a1d0e2 "Holophagae"
## f54c0eca0d64aade6c60bbad968da659 "Nitrospira"
## 39e9884255a81dfa04b47a2b11e3ef5b "Phycisphaerae"
## aa33408e38ea9b07aa856e8e6701b0da "Acidobacteriia"
## cf7bf8f703a8335c0d3018f4604f1cb6 "Opitutae"
## 31f232781685558bf9d62e35e8f237f9 "Verrucomicrobiae"
## b8b9f753c83c855cc38aff497e5e89ce "[Spartobacteria]"
## 85e29914e803ab4d6fb6602bd6b9ff00 "[Spartobacteria]"
## d37b60c688fcca90997aadce4c64d5a9 "[Pedosphaerae]"
## 107aca9889569069069d195bd8a31697 "[Spartobacteria]"
## bd3849fc9106f9cdacb9341795c8cb29 "[Spartobacteria]"
## b5d0c6f1b9e8a8302389f77b79dcda85 "[Spartobacteria]"
## bd1b5b2bb3a3f6cd721255c7a706da1c "Verrucomicrobiae"
## b9bad8448867f57e6a14c1a242c48774 "Verrucomicrobiae"
## b22df4733817d748ec348e7f3e6b33eb "Verrucomicrobiae"
## 8941145147965d89bfcc4e88c0b9535b "[Spartobacteria]"
## 0d9178b0087a618145122137d5f02c9d "Clostridia"
## 1d44015ea379303fcf6b84e6de3b56fe "Planctomycetia"
## abbfa75d6cee07b5d473575e6fc31ca6 "Chlamydiia"
## ebf9bf8eb6025551e0c72b979eadee03 "Chlamydiia"
## 46d7cb3e670b0a7c6be9f9e87b8a9062 "Chlamydiia"
## 77ade2a27cd5cf184bc7c566b5e40350 "Synergistia"
## a0cdbcafbb2e9ca1d27ec77bf2e8d58d "Synergistia"
## a79f2d2819aa6abbb25c3d52f0a6d88e "Deferribacteres"
## 9640db4284f6de2f96bc6a089999e1d9 "[Leptospirae]"
## Order
## 738f9b43067c64d7dd19a58e16776ca1 "E2"
## bf3ea7575ee681f6cc071fc10a9b0c9e "Methanobacteriales"
## 81ca8fa4a795e9929b18c343fa7e5d6d "Methanobacteriales"
## fce80713066a40d6d40c78a2bfc701f0 "Fusobacteriales"
## da2d307acbc750e709821f37106a97ee "Fusobacteriales"
## ec4dafd949562cb1c67abf1edb908e45 "Fusobacteriales"
## 937486517cc80db8a7247c8d9cedcb6c "Fusobacteriales"
## 2960c4868268ab63fffd54d389e709f4 "Mycoplasmatales"
## b1cc0afab8aabe335f3d2183a8f862a8 "Deinococcales"
## d812033144facb838340db156bc7cddb "Deinococcales"
## a8d5e516d55e0f840a901a1754faf215 "Deinococcales"
## b3f7ce9240052a0925ec9e675b5c5801 "Deinococcales"
## dd2c236c7e7f2b0eca6a81e2ac82e5e9 "Deinococcales"
## f572830d714e07d0b571ccb4029c577b "Deinococcales"
## 12c129f217c4ceeb3f4e6992749ee828 "[Fimbriimonadales]"
## 1ef109986a98fbad2514a0bdde298328 "Bacteroidales"
## 550a6c75a980e53ebe63fb821d692cf3 "[Saprospirales]"
## 08790daac50cd048ed5839225585e108 "[Saprospirales]"
## 9cbea8ff52e16e14d63f27d5f6f9ee70 "[Saprospirales]"
## 38876d2e7234ac8c535d914e1b89c7f2 "[Saprospirales]"
## 937da713490e1d08e8727822deaeb6ca "[Saprospirales]"
## 32756a7fcc03fdddee0c5b2da35b7940 "Sphingobacteriales"
## 6ba1a63b03ed1667ddedc0813b737f0d "Bacteroidales"
## 23f0414ba47f7c7999f913671268837d "Bacteroidales"
## 5ada85d7be5d55db0cd492bca13b3003 "Bacteroidales"
## a51c11ce94e4c3cedeeeb25ccda839bb "Bacteroidales"
## 183f2ec8041f54e28b279213dab7f242 "Bacteroidales"
## 3ec9a72eea2934c7e20bf5e3840b3935 "Bacteroidales"
## 6549baa73149f7a4de583300732198e3 "Bacteroidales"
## f4871a37ef764e383f723e547ad345d3 "Bacteroidales"
## 12332a0b15374a26f88d178f33975164 "Bacteroidales"
## 6fa2a60e9fa2afc9bb356bff76e8aea7 "Flavobacteriales"
## 7ef9ec92fa1dc4d4b175a2590b38c1e3 "Flavobacteriales"
## 9d0ce3ffd40f17516f311a4f01ce71c3 "Sphingobacteriales"
## 23ebb02f88264051fb546154a4b76f1f "Sphingobacteriales"
## 2c2e6c9719c3d353fc8fc4c29277bf3a "Sphingobacteriales"
## e93b056509933455a642b22131e787f6 "Flavobacteriales"
## 2f4128d15aa3f31e65bb6be743cf2652 "Flavobacteriales"
## 82a38739a3d57c68d7488b32235fd9c8 "Flavobacteriales"
## e87605af38d7adbc36e9bf2ccb4b9ed1 "Flavobacteriales"
## 675f216a655188ee527413d79502e884 "Flavobacteriales"
## fd67289a69cb1b8b911c9c0d5aae561c "Flavobacteriales"
## 0156833a719406d6720169fa7c1a8c4f "Flavobacteriales"
## 394637d50ed3fa18f7ad4e5f459950bf "Flavobacteriales"
## 727cd1eebae3ae24468583a5fd29bf40 "Flavobacteriales"
## fe148c0776bd59b90cb0a4d2f18a7431 "Flavobacteriales"
## 87b5fc5e91a8d3cc174f4741e97756eb "Flavobacteriales"
## 97904005472b49b5a729b1f7470c3bce "Flavobacteriales"
## 0d1d623d430214d67ab7dd50d86923eb "Flavobacteriales"
## e0534df6ab1aeb8c188f3b0768b7d5ed "Flavobacteriales"
## 7f356ca83a2db14690a64a74ef25a18a "Bacteroidales"
## a88bc39d28216b7fea5c260c1eba645b "Bacteroidales"
## df0e399449afea146ca01aff07d5422e "Bacteroidales"
## 3abf10c0fb708bc94c3ea4dd299e0970 "Bacteroidales"
## 22ec7a68d4ffe650f8dd1151196824ae "Bacteroidales"
## 4431ece8c33501e69a7108763af73b9a "Cytophagales"
## 943f60dee4de6bf45e42e9305d688b0c "Cytophagales"
## 2295bf9acbfa418fbcd3b30754f6148e "Cytophagales"
## 0a8e379dd40b23d151f6392ed1a51934 "Cytophagales"
## 4ac7304960d351f3fde8c6b271e02cd1 "Cytophagales"
## 74156312fe86d82180dcebd7fa2f1d3b "Cytophagales"
## a6c1c1db83cc085b6f4410843de68aec "Cytophagales"
## abd4e33c5a5b25b15f743da0ba2d47de "Cytophagales"
## 88063ce6d940ae9490d8f68ebbe70efd "Cytophagales"
## 76750ffa90fdd5952e8570f9a1fc11f9 "Cytophagales"
## 0d81c4844619813dd873a65bcf91b75b "Cytophagales"
## 87ae24a9562a267c0c47df8e04a60f89 "Cytophagales"
## 5e75d3a55ceb4dc7a55910426de76734 "Cytophagales"
## c99b81e959d197f32acce3adc9c4fab5 "Cytophagales"
## 4c16e214394f648bcce3b069ef859388 "Cytophagales"
## bde4c36da80878e658df02d338931982 "Cytophagales"
## 61899b1d726126ee51b7335a9e17ea3f "Cytophagales"
## d2585e354502d89dc5e0a6e923551ec4 "Cytophagales"
## c5a6d0e5a5aec5fb2aeaea82dea15305 "[Rhodothermales]"
## 46546f341eac9b2125a8e152eef86d82 "Anaeroplasmatales"
## f39b347d2f6c66682fd9982cae666e88 "Clostridiales"
## 9dbb7cbacf6d05c6f914fd172280c3ff "Clostridiales"
## 8f9ad93911aa5eaeb33b21f8f7c2c45f "Clostridiales"
## d27c33a2c70998d3ea63eb1ff3cb0221 "Clostridiales"
## d5167fdceb8a3baf484e932653cce66b "Clostridiales"
## 92591f68fc9a379243ba99075a0c1a11 "Halanaerobiales"
## 7b0402e21e2605b6efc8f9ee96439660 "Clostridiales"
## 108ec75ebd3d17a56bfabec9ab334e0e "Clostridiales"
## 49e2fbc314555e9fd5f1accf0fb91af8 "Clostridiales"
## f3f29b983fe8c0dfe37668e9d4ae8bc6 "Clostridiales"
## 569418df588c6249c6525811063aacf5 "Clostridiales"
## 65a75861ea5af532e70ba307bf70a9a9 "Clostridiales"
## bb3291ec469409c1d58c5b0fdc933ec6 "Haloplasmatales"
## ee9bbcdf5eab5edd0596f444214183cc "Clostridiales"
## 90fe5379a170a7caa71f8f383f485f2b "Clostridiales"
## 0e7f78e494e734305ea59cd0caafa1b8 "Clostridiales"
## 95b83723ec29f8943be9bb7d717c5a4b "Clostridiales"
## 257742c10ede9357a9f59a3217461ae5 "Clostridiales"
## 1db331ef1773d7b27b8e386278202b7e "Clostridiales"
## dd5ce8d0b040693d540cb5aaf1b9fb3b "Clostridiales"
## 9579cc9ad7e64d3305e8aa5e53c667f7 "Clostridiales"
## be88e2bee5866989aa7c16c28646cf50 "Clostridiales"
## 059e847d26f267fa3730d112f3014b1f "Clostridiales"
## 23a5e6774a168faddfac530ac1033388 "Clostridiales"
## f2735c286490a71c359f4d5db6bdd217 "Clostridiales"
## ba0596067c4e680406c82c4baa296538 "Clostridiales"
## f2def42b08374f35a87be49c511de37a "Clostridiales"
## 8302230fee8b0e524dc372e6e97211e1 "Clostridiales"
## 8ac67871377691e5f68c2600870352ec "Clostridiales"
## 75734bf2678c55d2dbbdffa17417ab89 "Clostridiales"
## 198c7b560d46758bcbad890d07833b37 "Clostridiales"
## 75bc33d3f4be73b5221a58ddd6e73798 "Clostridiales"
## 62a7641b0fd611f2b5f56840e4afe298 "Clostridiales"
## 0c438af5dc97a32a49dc6cf46e911b17 "Clostridiales"
## f414562b9ba38395a17b663355f405f8 "Clostridiales"
## f1d10bfa443393cfe67263894c84e566 "Clostridiales"
## d862ff0f8f5c9f39ae13f080aa680bb3 "Clostridiales"
## 702add448b05e3087ea6cecea7dd90b4 "Clostridiales"
## a3a479ce8ea08a480c9a96d6cd9c2f62 "Clostridiales"
## 2546dd1d30f6556190239a0f5c8efad3 "Clostridiales"
## 5891492addacafaf26c9ab65b7c17a3f "Clostridiales"
## 94f2f98ac7d8d5e8ea731c9c3ee48c86 "Clostridiales"
## 61880eb94d6e2c60ff0276bccb67c9ec "Clostridiales"
## 0360a498b5585f9028fa802e6b4f7bf5 "Clostridiales"
## 135ea3e4d147e2cf6e381bd218ca38c2 "Clostridiales"
## 7be1f8896d95573e6ba7523bf6d29546 "Clostridiales"
## ab7e93274f5830e83f60e578976747d3 "Clostridiales"
## 5ad1971e7c113f850929b1752979a1a5 "Clostridiales"
## cb9fe9ff4eb7853282a4d840335b6fc5 "Clostridiales"
## d6377ab8698308388991039193fed9e6 "Erysipelotrichales"
## c002515d386833fd7c4969a03a9aebb5 "Erysipelotrichales"
## 99acc08c0d8bfce4ad95740ddf504a83 "Erysipelotrichales"
## 51c88352cb0925e74ba66a7dd7cde265 "Erysipelotrichales"
## a71a5fde3bfe18523396fab08f4e474d "Anaeroplasmatales"
## acaa6fe062445b95590d349c619ff73f "Erysipelotrichales"
## 77be883e73ff901aea64b7487a80e245 "Erysipelotrichales"
## 07ed27499a5612e2a730ef4d4a95cae9 "Erysipelotrichales"
## 48ae71b68d6954a54eb355054e9ca62a "Erysipelotrichales"
## eaa57f77edaae985a5784f41ece4ce33 "Lactobacillales"
## da3fd1a55a332ea87aa1da2b633d54b2 "Lactobacillales"
## a62e32c83e169200a7222bc5e937b23b "Bacillales"
## bdbe4504d2313c7e46d1e5a1b4c502f3 "Bacillales"
## 86599a57e1dcd7a14bdfd8dacbdb29c4 "Bacillales"
## ff931fa606fa70b98d9cc7339959e1e4 "Bacillales"
## 26d9efc3df990145f38903f8fcf86546 "Bacillales"
## c6f61b95201848ba396fcf8f9f393bd8 "Bacillales"
## 2acd7b47e3bfd5c56047c3922a32dc50 "Bacillales"
## 56a8dc24218d559971fd66bfbc07b25e "Bacillales"
## c8b0264dca035066a4f98e8f5f57a1fd "Bacillales"
## 0ad56849fee2b97ca31f66083120f60a "Bacillales"
## 0080fef6444702a9598894828d7c6480 "Bacillales"
## d24f404d0e184ab79cba846971453bcd "Bacillales"
## 400a504e050fa1e94dbb78a317a91676 "Lactobacillales"
## b5d49db9d9ccb60a34050267bfcc36fe "Lactobacillales"
## 2c234c87c5882dd4f414aec10fa936c2 "Lactobacillales"
## 0f1caf1bbdbe6b2ca659622ee70d0b63 "Lactobacillales"
## e5c43f196cbe5ab66faa3c4f467a0886 "Lactobacillales"
## 6b085c4046ac5ebe8ef6ac62d791bea5 "Lactobacillales"
## c00d929bb5c22936acc74570e3b5bdf6 "Lactobacillales"
## 1d05ba400871e661d4b6f5d5221ceaa0 "Lactobacillales"
## 4580887b2b9919823d69f37282c7eb68 "Lactobacillales"
## 2e398b8d21dc0766b2cf014de5f215f9 "Lactobacillales"
## babb2ebb5ca6d5b569dbcd2b4b628198 "Lactobacillales"
## bf2c7a63827bc0b6e73780bd35ef1b24 "Lactobacillales"
## a5d29f17bd1a64838e0d611fbcdd1ff6 "Lactobacillales"
## 3c7e37f4083b0b16aa9124dad86730c7 "Bacillales"
## 045316716e32037c41e0b163bf4d7f21 "Acholeplasmatales"
## d8f53497fb4a7d7ece0196fb9f0a6ab4 "Bdellovibrionales"
## 5cfcdb0adca683f26388b734166fa45b "Campylobacterales"
## d372fbcdc973cce384300297bee0478f "Campylobacterales"
## ae33131a40a790d5a6e096dfe63a89d8 "Campylobacterales"
## 187e9220f0344b3c3fa9269ef230fc90 "Desulfuromonadales"
## 672ee70217e3b5a9235307922a02c7f8 "Bdellovibrionales"
## 5e056cc118579d9d7c95fe778b8ea768 "Myxococcales"
## 9b487aae59ee8631f146add439f853d2 "Myxococcales"
## 1ae19e5736f0e1386f60a9f7c5d78fde "Myxococcales"
## 0ab39039498ea9d85c86e8123448534b "Myxococcales"
## 653b92284cc9d8af71788389322f0edd "Myxococcales"
## e21fc8d6fb72d301fc9c60d5767cce74 "Desulfovibrionales"
## e8707202237b30ae28569d165c85bf19 "Desulfovibrionales"
## f889b0623697ffab382195032c9ad941 "Desulfovibrionales"
## 305ad58751bd60cdfb4c103af7c099f4 "Desulfobacterales"
## 045260d3560e65d1ed7fc1184847d2ab "Myxococcales"
## f31d96a0dc85b58019e54c41729a5705 "Alteromonadales"
## 801ac076ebb43dd3c879924efd470f18 "Methylococcales"
## 7c71dd18459d57c725a3ad9ec173d5db "Methylococcales"
## 32391b052e2eb6e82b519a21b917701a "Cardiobacteriales"
## 90023f83f20dc4626e11297485a2a460 "Oceanospirillales"
## f79e941eee754904cdc3e35d0786a2bd "Alteromonadales"
## 892d322ffc17d6b4821998ef14e94580 "Oceanospirillales"
## 9b44baa49a601fb4b6c50c312c901778 "Pseudomonadales"
## cbb4db0a376d0da10f3409b324e572b3 "Enterobacteriales"
## 2926f7065c61a289014e2ef920198e41 "Pseudomonadales"
## b90f313249467f3247b2e178108f56c4 "Alteromonadales"
## 9fb82f32eb82975222f78b04260eaa3a "Alteromonadales"
## 23ccd8e52a41d7ca1cd3f7d18bb747b7 "Oceanospirillales"
## 2de364e6eaebebbbb28cca6b2ee5f322 "Oceanospirillales"
## 100dda46eb1c9633ba33d459cad7b6d3 "Chromatiales"
## 2027d883259942129f4653bb8773ccbb "Oceanospirillales"
## adce59f1751d627ceab8dd97f4d04c6f "Pseudomonadales"
## 4be80be705379fe624bf4f236868c161 "Pseudomonadales"
## 0c8e4b53a95f728aad2fb84bbd346f97 "Alteromonadales"
## efbb12b0a03e0073ea00bee12f98b36e "Alteromonadales"
## 1d38cdf4c8a50b1ea96f2156356de988 "Enterobacteriales"
## 19a6bf2bac2f1eda36feda7b342d2fb5 "Enterobacteriales"
## 27105df2940b9391e03c2d80d7f8b4f5 "Enterobacteriales"
## 939aeb8878169f64a49619412a2f63b0 "Aeromonadales"
## e0e1b66edfc9669ea0d9a6a802bf2788 "Vibrionales"
## d89d2a592c1aca630b867e7ccb9e42a6 "Vibrionales"
## 5cf7e8ff515a6a5f6104637fd70423c1 "Vibrionales"
## 69a578040fb5a9fff8bc026b7909ba83 "Vibrionales"
## fbf60a3c4454aa9de8e64561fccc5345 "Alteromonadales"
## a1d7db2eb229495c2c82b6983acf7e43 "Aeromonadales"
## 17fad4dc8312a2057293bfc76005b8de "Aeromonadales"
## 73dc5d7d8e076fd5a6aeddf13f9ef785 "Xanthomonadales"
## 133220fc9566f8823ba6361d973f7e56 "Xanthomonadales"
## 11a0aa4ba2b9f7349d89e260f7091c23 "Legionellales"
## 8a8122d28d426c268bc33a6036ee1201 "Legionellales"
## 56f83521d186287a1334d08d18f63158 "Nitrosomonadales"
## 8987bf7650d847a8389432b1b97b9076 "Methylophilales"
## c99ed97ec81f07d7a5bf5e6d39644e78 "Rhodocyclales"
## 79d01cf1a57f4ae9b2100a92fc8ccdba "Neisseriales"
## 49d4b7fc67aed6a6c15b45b14ec2d0bd "Burkholderiales"
## 787102493891f91105723053cb7fa472 "Burkholderiales"
## 83cfc0b49f561f34323bf84f88479fb0 "Pasteurellales"
## ed4ce9dc264e70619df3ec76f6551fd6 "Pasteurellales"
## ac967d4c0addb4554c76a32d34fd6c95 "Pasteurellales"
## 438f1f8281a645f62d60881fd6b0fa57 "Pasteurellales"
## 7fc26bb3199fb45b03be3a64086369fc "Burkholderiales"
## 69c2a11ae089bcd6b89a7e0e820348a0 "Burkholderiales"
## a1a04d3b99a0830ff52c65019cdbf0ae "Burkholderiales"
## cb8975338b82a1cde52ea64147755a73 "Burkholderiales"
## cbcf57af593627cc223bc600b5fb8318 "Burkholderiales"
## dad64d6402e87f2685829f369810b4da "Burkholderiales"
## 1d4ba0b34502c3002f4e746231e00d5f "Procabacteriales"
## a8f07c39cca53fb138e8007eb22aa6a1 "Neisseriales"
## 94ea0cf0f0fc7c8f21b14c876a6531e5 "Neisseriales"
## d689bc688fc4d75a7bb96dae07c80129 "Burkholderiales"
## 085877117ce16b29716cb7211f5bf8e0 "Xanthomonadales"
## 6e8ddec699ec02deed4236f0af079318 "Xanthomonadales"
## dc5b0a8becafb8ce2ca3326fc498464b "Pseudomonadales"
## 1d4f2df9b6265023cd7a291fd570f21d "Pseudomonadales"
## 9b740e8e047c98bb45cd4dc582c1a7f9 "Pseudomonadales"
## b8a850e18c6624af91cd225fbdefa983 "Xanthomonadales"
## e648c38b1b9e6300c7919c49b32f2d6f "Xanthomonadales"
## c1889e2c77161500555ea720c5850b61 "Xanthomonadales"
## 9b6c084f78f830b31a28de8180814ae8 "Xanthomonadales"
## 88242931b35810f68ef8dd396bb1d337 "Xanthomonadales"
## 3e155bea0907cecaf362cac4e87deb3d "Xanthomonadales"
## 5e55605eb003f98493386574e7670725 "Xanthomonadales"
## 14f6c55698300e24e20f0af01fc1362a "Syntrophobacterales"
## d59a2064644c08d1dadbbce20f19f527 "Rhodospirillales"
## 20e66d19c6e48da230746eb8df4fbee9 "Rhodospirillales"
## db18ee1beaf8b0931f49185b7e87bb50 "Rhodospirillales"
## 5bddc3e2dd40027af0348e3e496b5ede "Rhizobiales"
## 98c0af570beeb456ca1529e4b7539b6c "Rhizobiales"
## 325c677d23378529799356c93bdbf138 "Rhizobiales"
## 184c1055f8871453d4cfb2e063826c79 "Rhizobiales"
## 8454ff06fc777ee1792f0a92c0a2a3db "Rhizobiales"
## 139b3a842bac5a67836f791535c71ed2 "Rhizobiales"
## b43b837314cfb7aef5d3c3fd8e8142b6 "Rhizobiales"
## 7eaa2034a21192be6ecfaec001f3fa08 "Caulobacterales"
## c378c39c2cfe843318ac7345e6189014 "Caulobacterales"
## 6669e651c7a9d2b735e9b7d496508cde "Caulobacterales"
## 1a7a971d3bcf21592d1ebabf35d100fd "Caulobacterales"
## dc367720df5c1ae8d78019dc83dd2e0b "Sphingomonadales"
## b8f6759d312f1de655ef951649593ef0 "Sphingomonadales"
## 21b486ea16b34f5b7ce3c8224c331d5e "Sphingomonadales"
## ffcd590944755753b1d8ae88273c731f "Rhodospirillales"
## e522565172c313a3ffddbfc619a2d21b "Rickettsiales"
## d96b6207fb8725b32db97bec235ce3d0 "Rhodospirillales"
## f8c6df3d56ff7649bc52d0aedbc8e048 "Acidobacteriales"
## 405d0bd8bde3bbf8136655339aaffb32 "Elusimicrobiales"
## 4f7b6df0faabff63004fd8e4aa84143e "Spirochaetales"
## bd450cfd5b93248abf2a4b1ef4e57ae5 "Spirochaetales"
## 39832721d381138daa264d1543480827 "[Borreliales]"
## 8b9d573892bcf008125b830abb494242 "Nitrospirales"
## 22d355b3fc4793261d21a6f9fb219f49 "Thermoanaerobacterales"
## 5b34a5582c8a0efd4e8746a39925b754 "Clostridiales"
## 7d4cd07fe04d753bf8bcb57dc27f71b1 "Bacillales"
## 35f15070627d645a49065e8e30004ee4 "Bacillales"
## 7a282fb1eafde33e74e1af68340132cc "Bacillales"
## ba38edc1c02e03da1577a96422af5ea0 "Bacillales"
## 55e81e6a020e5d9dd500a0ac51b0b283 "Ktedonobacterales"
## ad02c5eee2b39f40fac1f608e9a588d2 "Anaerolineales"
## fe81a158a7d2c78cdb8d494c150dab85 "Anaerolineales"
## 4088b88f122d38e0d64a1691202e7ee6 "Caldilineales"
## 74f297c560f6dad782d11d1b77e88621 "Chloroflexales"
## 8c3abd03b35e980141bc63102af4480f "Chloroflexales"
## bf71e327691c4854a681e15b28902a68 "[Roseiflexales]"
## 8971ea6436b3f2f9d4f2f4b1bab4ad01 "Thermales"
## 91d9b2a9eb8359f3b10a4ff82eaac7bb "Fibrobacterales"
## 815fc729fe3c00d325ab760f6bb74b08 "Gemmatimonadales"
## be014e630e00e5c6e3f0ca87daa86d1b "Coriobacteriales"
## d443d45b9452b33e2f15317f488a8aff "Coriobacteriales"
## 2bc3044df4d1da6e21cdc4a5aa7f2d7c "Coriobacteriales"
## 1da892b315515f65dcfd83beb0e171bc "Coriobacteriales"
## 84763964b516506d9a5daa198694508a "Coriobacteriales"
## 4cf10e8585dbc2b18d3aa2def42863cd "Coriobacteriales"
## 044575c49355d2dc1dc328d7f4cccf07 "Coriobacteriales"
## 98828518c045dbd013ddf95ed960ff68 "Gaiellales"
## 32b519e9b7a8e3207f070845156855a0 "Solirubrobacterales"
## e9ab2e1d89fdae4700c6740323ae0d91 "Solirubrobacterales"
## 79746a8c7e32d661ecde6164f1de5cbe "Nitriliruptorales"
## c97d71471bfaf2c3e54913809ec72f2a "Actinomycetales"
## 9d2d8b251de60fe5dff92e5e0b4ed3f7 "Actinomycetales"
## 468b178baa29eebee837710342a0f910 "Actinomycetales"
## 49ce92d31439808d0d1bea75a00d5bfc "Actinomycetales"
## 537d15ab7624090dc5c79090bd6a167e "Actinomycetales"
## 6a817ad430bbcadd29c75840b4fd25c4 "Actinomycetales"
## 0a8448ddb119a2aa1e0ae86928097f91 "Actinomycetales"
## 62058d158b24b3fbea81b2be7061d67d "Actinomycetales"
## f80f713bc2c318c2d2e857fa60324f71 "Actinomycetales"
## fb96448a13cbd1b35b97f5ea7c9d9f0c "Actinomycetales"
## 492710d4b2c77ae8a3887b6b67edf135 "Actinomycetales"
## 399b720f381d18fb6054810664faf3b1 "Actinomycetales"
## 4e624224b836599c23297d3c0d738f2c "Actinomycetales"
## fe1f9c1511f40357b7ff3f062a9e9a2f "Actinomycetales"
## db89f0083e3043374e273f1168399165 "Actinomycetales"
## 9606f5b31c4365a210f062af56429ba4 "Actinomycetales"
## cf624c989019ccb39a8316fd82969fca "Actinomycetales"
## 78bb7782ad610368d38621de127fa83c "Actinomycetales"
## 7a4040c73abc580073bdb4eb1d74a33d "Actinomycetales"
## a63e98d52785ca8e8af60d0804af5dae "Actinomycetales"
## eb07445c23ec6a0baaf838fec7f3f2a5 "Actinomycetales"
## ef289d460d88b8bf99288c9ccafa3de4 "Actinomycetales"
## d982cb2e9c52d04a131bfd6bfd57143f "Actinomycetales"
## f10abcfb58070db144ab557203b15112 "Actinomycetales"
## 2e3e409911947f6b58055dac76eafff2 "Bifidobacteriales"
## 6a8e34c34c852052fbb2ef47f31923cf "Bifidobacteriales"
## 69b20ec4a1f82d5d7bfccce73e181144 "Bifidobacteriales"
## 2f3464d9017dbcc3c07539e9e6d031d1 "Actinomycetales"
## 19b23b503d10795479f12bed782e37bf "Actinomycetales"
## 13c1dc3da2ab678bb67e738463291f41 "Actinomycetales"
## 0f7c178d133e189017d861892caf1b54 "Actinomycetales"
## 0c416bb1ef62f13288e440253605f1f6 "Actinomycetales"
## a9ea27c012d71729be0af434b0135b8f "Actinomycetales"
## 9910430d69cf086a7a32730d88e36ca1 "Actinomycetales"
## bc5dc688aca3e85050859ccffb837227 "Actinomycetales"
## 6cfcb015a00c6f3fb16e6eec63f4a35c "Actinomycetales"
## 1034ce7814ed4bb5c4506bc6b75eaa3f "Actinomycetales"
## 9dc76e20f768b3449b07c21ff7377623 "Actinomycetales"
## 4353875d14dabd7fe11946d21ac50b66 "Actinomycetales"
## 1c927fead59f669c939d603634ce60e3 "Actinomycetales"
## cc06b4a0146591e922e1f9c019a63485 "Actinomycetales"
## c2b4b05dc7cde089c596aaaea2349b57 "Actinomycetales"
## c0fcac392fda5b2c85f7eff24b4a08ed "Actinomycetales"
## fdc1a7c3ebe3c43c9205147181cadf6b "Actinomycetales"
## e229fd918de8f64d13ec2a69bab94a5d "Actinomycetales"
## af0d699336503dd28940bf80973df0d1 "Actinomycetales"
## 7beb6afb10d4a33729f38eae58eb86fe "Acidimicrobiales"
## 9f213cf8c7852cace5c0bae0997ca479 "Acidimicrobiales"
## e5516025a4d9f48a9fd7248989289b17 "Chroococcales"
## 265b94ca9e486aa0e39696dbf1004bab "Pseudanabaenales"
## fc5a4fb7042e9842c36f36e0ab934610 "Chroococcales"
## c11850f778c3ed2aad77e905a962df9f "Chroococcales"
## e1defeafac8215315915a82ed015dcb2 "Nostocales"
## 4b4b20eeb4a4ccbd441b8d2ef9f31bf7 "Nostocales"
## 5575e3a3b9446bc439d3a13064c07e21 "Nostocales"
## 565f359611711ce61076b0f3f8eb9453 "Nostocales"
## 83196c5429def72c900061a0a8c5b49b "Nostocales"
## 0c6f8e3cb66947204cae236072a04a74 "Oscillatoriales"
## 2472bec6d09ab949b643cb1a4f41816b "Pseudanabaenales"
## de5d66672c644945370a3bd62bd2caf4 "Pseudanabaenales"
## 03ca951e561969caf45da606fde67866 "Chlorophyta"
## d02aa15268aade892ad5dff83af3e7da "Chlorophyta"
## 3cd6ab4607d7c365dfdc11a48bf893c5 "Oscillatoriales"
## 48b2489d2a8ef650129b144899cdf302 "Chlorophyta"
## 0040892ff482919cb88018e43a333cca "Chlorophyta"
## a0051aa570b907944f08a912f8bc09fd "Chlorophyta"
## d49b641988fea3844b9de1e6ad26ee98 "Rhizobiales"
## 14e8f8943c5595bbea2cca1cc3c383d0 "Holophagales"
## d9b514bc64139095efef65a654a1d0e2 "Holophagales"
## f54c0eca0d64aade6c60bbad968da659 "Nitrospirales"
## 39e9884255a81dfa04b47a2b11e3ef5b "Phycisphaerales"
## aa33408e38ea9b07aa856e8e6701b0da "Acidobacteriales"
## cf7bf8f703a8335c0d3018f4604f1cb6 "Opitutales"
## 31f232781685558bf9d62e35e8f237f9 "Verrucomicrobiales"
## b8b9f753c83c855cc38aff497e5e89ce "[Chthoniobacterales]"
## 85e29914e803ab4d6fb6602bd6b9ff00 "[Chthoniobacterales]"
## d37b60c688fcca90997aadce4c64d5a9 "[Pedosphaerales]"
## 107aca9889569069069d195bd8a31697 "[Chthoniobacterales]"
## bd3849fc9106f9cdacb9341795c8cb29 "[Chthoniobacterales]"
## b5d0c6f1b9e8a8302389f77b79dcda85 "[Chthoniobacterales]"
## bd1b5b2bb3a3f6cd721255c7a706da1c "Verrucomicrobiales"
## b9bad8448867f57e6a14c1a242c48774 "Verrucomicrobiales"
## b22df4733817d748ec348e7f3e6b33eb "Verrucomicrobiales"
## 8941145147965d89bfcc4e88c0b9535b "[Chthoniobacterales]"
## 0d9178b0087a618145122137d5f02c9d "Thermoanaerobacterales"
## 1d44015ea379303fcf6b84e6de3b56fe "Gemmatales"
## abbfa75d6cee07b5d473575e6fc31ca6 "Chlamydiales"
## ebf9bf8eb6025551e0c72b979eadee03 "Chlamydiales"
## 46d7cb3e670b0a7c6be9f9e87b8a9062 "Chlamydiales"
## 77ade2a27cd5cf184bc7c566b5e40350 "Synergistales"
## a0cdbcafbb2e9ca1d27ec77bf2e8d58d "Synergistales"
## a79f2d2819aa6abbb25c3d52f0a6d88e "Deferribacterales"
## 9640db4284f6de2f96bc6a089999e1d9 "[Leptospirales]"
## Family
## 738f9b43067c64d7dd19a58e16776ca1 "[Methanomassiliicoccaceae]"
## bf3ea7575ee681f6cc071fc10a9b0c9e "Methanobacteriaceae"
## 81ca8fa4a795e9929b18c343fa7e5d6d "Methanobacteriaceae"
## fce80713066a40d6d40c78a2bfc701f0 "Fusobacteriaceae"
## da2d307acbc750e709821f37106a97ee "Leptotrichiaceae"
## ec4dafd949562cb1c67abf1edb908e45 "Leptotrichiaceae"
## 937486517cc80db8a7247c8d9cedcb6c "Leptotrichiaceae"
## 2960c4868268ab63fffd54d389e709f4 "Mycoplasmataceae"
## b1cc0afab8aabe335f3d2183a8f862a8 "Trueperaceae"
## d812033144facb838340db156bc7cddb "Trueperaceae"
## a8d5e516d55e0f840a901a1754faf215 "Deinococcaceae"
## b3f7ce9240052a0925ec9e675b5c5801 "Deinococcaceae"
## dd2c236c7e7f2b0eca6a81e2ac82e5e9 "Deinococcaceae"
## f572830d714e07d0b571ccb4029c577b "Deinococcaceae"
## 12c129f217c4ceeb3f4e6992749ee828 "[Fimbriimonadaceae]"
## 1ef109986a98fbad2514a0bdde298328 "[Odoribacteraceae]"
## 550a6c75a980e53ebe63fb821d692cf3 "Chitinophagaceae"
## 08790daac50cd048ed5839225585e108 "Chitinophagaceae"
## 9cbea8ff52e16e14d63f27d5f6f9ee70 "Chitinophagaceae"
## 38876d2e7234ac8c535d914e1b89c7f2 "Chitinophagaceae"
## 937da713490e1d08e8727822deaeb6ca "Chitinophagaceae"
## 32756a7fcc03fdddee0c5b2da35b7940 "Sphingobacteriaceae"
## 6ba1a63b03ed1667ddedc0813b737f0d "Rikenellaceae"
## 23f0414ba47f7c7999f913671268837d "Rikenellaceae"
## 5ada85d7be5d55db0cd492bca13b3003 "Marinilabiaceae"
## a51c11ce94e4c3cedeeeb25ccda839bb "Bacteroidaceae"
## 183f2ec8041f54e28b279213dab7f242 "[Paraprevotellaceae]"
## 3ec9a72eea2934c7e20bf5e3840b3935 "Porphyromonadaceae"
## 6549baa73149f7a4de583300732198e3 "Porphyromonadaceae"
## f4871a37ef764e383f723e547ad345d3 "Porphyromonadaceae"
## 12332a0b15374a26f88d178f33975164 "[Barnesiellaceae]"
## 6fa2a60e9fa2afc9bb356bff76e8aea7 "Cryomorphaceae"
## 7ef9ec92fa1dc4d4b175a2590b38c1e3 "Cryomorphaceae"
## 9d0ce3ffd40f17516f311a4f01ce71c3 "Sphingobacteriaceae"
## 23ebb02f88264051fb546154a4b76f1f "Sphingobacteriaceae"
## 2c2e6c9719c3d353fc8fc4c29277bf3a "Sphingobacteriaceae"
## e93b056509933455a642b22131e787f6 "Flavobacteriaceae"
## 2f4128d15aa3f31e65bb6be743cf2652 "Flavobacteriaceae"
## 82a38739a3d57c68d7488b32235fd9c8 "Flavobacteriaceae"
## e87605af38d7adbc36e9bf2ccb4b9ed1 "Flavobacteriaceae"
## 675f216a655188ee527413d79502e884 "Flavobacteriaceae"
## fd67289a69cb1b8b911c9c0d5aae561c "Flavobacteriaceae"
## 0156833a719406d6720169fa7c1a8c4f "Flavobacteriaceae"
## 394637d50ed3fa18f7ad4e5f459950bf "Flavobacteriaceae"
## 727cd1eebae3ae24468583a5fd29bf40 "Flavobacteriaceae"
## fe148c0776bd59b90cb0a4d2f18a7431 "Flavobacteriaceae"
## 87b5fc5e91a8d3cc174f4741e97756eb "[Weeksellaceae]"
## 97904005472b49b5a729b1f7470c3bce "[Weeksellaceae]"
## 0d1d623d430214d67ab7dd50d86923eb "[Weeksellaceae]"
## e0534df6ab1aeb8c188f3b0768b7d5ed "[Weeksellaceae]"
## 7f356ca83a2db14690a64a74ef25a18a "Bacteroidaceae"
## a88bc39d28216b7fea5c260c1eba645b "[Paraprevotellaceae]"
## df0e399449afea146ca01aff07d5422e "[Paraprevotellaceae]"
## 3abf10c0fb708bc94c3ea4dd299e0970 "Prevotellaceae"
## 22ec7a68d4ffe650f8dd1151196824ae "[Paraprevotellaceae]"
## 4431ece8c33501e69a7108763af73b9a "Cytophagaceae"
## 943f60dee4de6bf45e42e9305d688b0c "Cytophagaceae"
## 2295bf9acbfa418fbcd3b30754f6148e "Cytophagaceae"
## 0a8e379dd40b23d151f6392ed1a51934 "Flammeovirgaceae"
## 4ac7304960d351f3fde8c6b271e02cd1 "Cytophagaceae"
## 74156312fe86d82180dcebd7fa2f1d3b "Flammeovirgaceae"
## a6c1c1db83cc085b6f4410843de68aec "Flammeovirgaceae"
## abd4e33c5a5b25b15f743da0ba2d47de "Flammeovirgaceae"
## 88063ce6d940ae9490d8f68ebbe70efd "Cyclobacteriaceae"
## 76750ffa90fdd5952e8570f9a1fc11f9 "Cyclobacteriaceae"
## 0d81c4844619813dd873a65bcf91b75b "Cyclobacteriaceae"
## 87ae24a9562a267c0c47df8e04a60f89 "Cyclobacteriaceae"
## 5e75d3a55ceb4dc7a55910426de76734 "Cytophagaceae"
## c99b81e959d197f32acce3adc9c4fab5 "Cytophagaceae"
## 4c16e214394f648bcce3b069ef859388 "Cytophagaceae"
## bde4c36da80878e658df02d338931982 "Cytophagaceae"
## 61899b1d726126ee51b7335a9e17ea3f "Cytophagaceae"
## d2585e354502d89dc5e0a6e923551ec4 "Cytophagaceae"
## c5a6d0e5a5aec5fb2aeaea82dea15305 "Rhodothermaceae"
## 46546f341eac9b2125a8e152eef86d82 "Anaeroplasmataceae"
## f39b347d2f6c66682fd9982cae666e88 "Veillonellaceae"
## 9dbb7cbacf6d05c6f914fd172280c3ff "Veillonellaceae"
## 8f9ad93911aa5eaeb33b21f8f7c2c45f "Eubacteriaceae"
## d27c33a2c70998d3ea63eb1ff3cb0221 "Peptococcaceae"
## d5167fdceb8a3baf484e932653cce66b "Peptococcaceae"
## 92591f68fc9a379243ba99075a0c1a11 "Halanaerobiaceae"
## 7b0402e21e2605b6efc8f9ee96439660 "[Tissierellaceae]"
## 108ec75ebd3d17a56bfabec9ab334e0e "[Tissierellaceae]"
## 49e2fbc314555e9fd5f1accf0fb91af8 "[Tissierellaceae]"
## f3f29b983fe8c0dfe37668e9d4ae8bc6 "[Tissierellaceae]"
## 569418df588c6249c6525811063aacf5 "[Tissierellaceae]"
## 65a75861ea5af532e70ba307bf70a9a9 "[Tissierellaceae]"
## bb3291ec469409c1d58c5b0fdc933ec6 "Haloplasmataceae"
## ee9bbcdf5eab5edd0596f444214183cc "[Tissierellaceae]"
## 90fe5379a170a7caa71f8f383f485f2b "[Tissierellaceae]"
## 0e7f78e494e734305ea59cd0caafa1b8 "Peptostreptococcaceae"
## 95b83723ec29f8943be9bb7d717c5a4b "Peptostreptococcaceae"
## 257742c10ede9357a9f59a3217461ae5 "Peptostreptococcaceae"
## 1db331ef1773d7b27b8e386278202b7e "Peptostreptococcaceae"
## dd5ce8d0b040693d540cb5aaf1b9fb3b "Peptostreptococcaceae"
## 9579cc9ad7e64d3305e8aa5e53c667f7 "Ruminococcaceae"
## be88e2bee5866989aa7c16c28646cf50 "Ruminococcaceae"
## 059e847d26f267fa3730d112f3014b1f "Ruminococcaceae"
## 23a5e6774a168faddfac530ac1033388 "Ruminococcaceae"
## f2735c286490a71c359f4d5db6bdd217 "Ruminococcaceae"
## ba0596067c4e680406c82c4baa296538 "Ruminococcaceae"
## f2def42b08374f35a87be49c511de37a "Ruminococcaceae"
## 8302230fee8b0e524dc372e6e97211e1 "Ruminococcaceae"
## 8ac67871377691e5f68c2600870352ec "Ruminococcaceae"
## 75734bf2678c55d2dbbdffa17417ab89 "Ruminococcaceae"
## 198c7b560d46758bcbad890d07833b37 "Ruminococcaceae"
## 75bc33d3f4be73b5221a58ddd6e73798 "Lachnospiraceae"
## 62a7641b0fd611f2b5f56840e4afe298 "Ruminococcaceae"
## 0c438af5dc97a32a49dc6cf46e911b17 "Veillonellaceae"
## f414562b9ba38395a17b663355f405f8 "Lachnospiraceae"
## f1d10bfa443393cfe67263894c84e566 "Lachnospiraceae"
## d862ff0f8f5c9f39ae13f080aa680bb3 "Lachnospiraceae"
## 702add448b05e3087ea6cecea7dd90b4 "Lachnospiraceae"
## a3a479ce8ea08a480c9a96d6cd9c2f62 "Lachnospiraceae"
## 2546dd1d30f6556190239a0f5c8efad3 "Lachnospiraceae"
## 5891492addacafaf26c9ab65b7c17a3f "Clostridiaceae"
## 94f2f98ac7d8d5e8ea731c9c3ee48c86 "Clostridiaceae"
## 61880eb94d6e2c60ff0276bccb67c9ec "Christensenellaceae"
## 0360a498b5585f9028fa802e6b4f7bf5 "Veillonellaceae"
## 135ea3e4d147e2cf6e381bd218ca38c2 "Veillonellaceae"
## 7be1f8896d95573e6ba7523bf6d29546 "Veillonellaceae"
## ab7e93274f5830e83f60e578976747d3 "Veillonellaceae"
## 5ad1971e7c113f850929b1752979a1a5 "Veillonellaceae"
## cb9fe9ff4eb7853282a4d840335b6fc5 "Veillonellaceae"
## d6377ab8698308388991039193fed9e6 "Erysipelotrichaceae"
## c002515d386833fd7c4969a03a9aebb5 "Erysipelotrichaceae"
## 99acc08c0d8bfce4ad95740ddf504a83 "Erysipelotrichaceae"
## 51c88352cb0925e74ba66a7dd7cde265 "Erysipelotrichaceae"
## a71a5fde3bfe18523396fab08f4e474d "Anaeroplasmataceae"
## acaa6fe062445b95590d349c619ff73f "Erysipelotrichaceae"
## 77be883e73ff901aea64b7487a80e245 "Erysipelotrichaceae"
## 07ed27499a5612e2a730ef4d4a95cae9 "Erysipelotrichaceae"
## 48ae71b68d6954a54eb355054e9ca62a "Erysipelotrichaceae"
## eaa57f77edaae985a5784f41ece4ce33 "Streptococcaceae"
## da3fd1a55a332ea87aa1da2b633d54b2 "Streptococcaceae"
## a62e32c83e169200a7222bc5e937b23b "Planococcaceae"
## bdbe4504d2313c7e46d1e5a1b4c502f3 "Staphylococcaceae"
## 86599a57e1dcd7a14bdfd8dacbdb29c4 "Planococcaceae"
## ff931fa606fa70b98d9cc7339959e1e4 "Planococcaceae"
## 26d9efc3df990145f38903f8fcf86546 "Paenibacillaceae"
## c6f61b95201848ba396fcf8f9f393bd8 "Bacillaceae"
## 2acd7b47e3bfd5c56047c3922a32dc50 "Paenibacillaceae"
## 56a8dc24218d559971fd66bfbc07b25e "Paenibacillaceae"
## c8b0264dca035066a4f98e8f5f57a1fd "Paenibacillaceae"
## 0ad56849fee2b97ca31f66083120f60a "Paenibacillaceae"
## 0080fef6444702a9598894828d7c6480 "Sporolactobacillaceae"
## d24f404d0e184ab79cba846971453bcd "Bacillaceae"
## 400a504e050fa1e94dbb78a317a91676 "Aerococcaceae"
## b5d49db9d9ccb60a34050267bfcc36fe "Aerococcaceae"
## 2c234c87c5882dd4f414aec10fa936c2 "Enterococcaceae"
## 0f1caf1bbdbe6b2ca659622ee70d0b63 "Carnobacteriaceae"
## e5c43f196cbe5ab66faa3c4f467a0886 "Aerococcaceae"
## 6b085c4046ac5ebe8ef6ac62d791bea5 "Aerococcaceae"
## c00d929bb5c22936acc74570e3b5bdf6 "Aerococcaceae"
## 1d05ba400871e661d4b6f5d5221ceaa0 "Aerococcaceae"
## 4580887b2b9919823d69f37282c7eb68 "Lactobacillaceae"
## 2e398b8d21dc0766b2cf014de5f215f9 "Lactobacillaceae"
## babb2ebb5ca6d5b569dbcd2b4b628198 "Leuconostocaceae"
## bf2c7a63827bc0b6e73780bd35ef1b24 "Leuconostocaceae"
## a5d29f17bd1a64838e0d611fbcdd1ff6 "Aerococcaceae"
## 3c7e37f4083b0b16aa9124dad86730c7 "Listeriaceae"
## 045316716e32037c41e0b163bf4d7f21 "Acholeplasmataceae"
## d8f53497fb4a7d7ece0196fb9f0a6ab4 "Bacteriovoracaceae"
## 5cfcdb0adca683f26388b734166fa45b "Campylobacteraceae"
## d372fbcdc973cce384300297bee0478f "Campylobacteraceae"
## ae33131a40a790d5a6e096dfe63a89d8 "Helicobacteraceae"
## 187e9220f0344b3c3fa9269ef230fc90 "Pelobacteraceae"
## 672ee70217e3b5a9235307922a02c7f8 "Bdellovibrionaceae"
## 5e056cc118579d9d7c95fe778b8ea768 "Cystobacteraceae"
## 9b487aae59ee8631f146add439f853d2 "Polyangiaceae"
## 1ae19e5736f0e1386f60a9f7c5d78fde "Polyangiaceae"
## 0ab39039498ea9d85c86e8123448534b "Polyangiaceae"
## 653b92284cc9d8af71788389322f0edd "Polyangiaceae"
## e21fc8d6fb72d301fc9c60d5767cce74 "Desulfovibrionaceae"
## e8707202237b30ae28569d165c85bf19 "Desulfomicrobiaceae"
## f889b0623697ffab382195032c9ad941 "Desulfovibrionaceae"
## 305ad58751bd60cdfb4c103af7c099f4 "Desulfobulbaceae"
## 045260d3560e65d1ed7fc1184847d2ab "Nannocystaceae"
## f31d96a0dc85b58019e54c41729a5705 "Alteromonadaceae"
## 801ac076ebb43dd3c879924efd470f18 "Methylococcaceae"
## 7c71dd18459d57c725a3ad9ec173d5db "Methylococcaceae"
## 32391b052e2eb6e82b519a21b917701a "Cardiobacteriaceae"
## 90023f83f20dc4626e11297485a2a460 "Oceanospirillaceae"
## f79e941eee754904cdc3e35d0786a2bd "Colwelliaceae"
## 892d322ffc17d6b4821998ef14e94580 "Oceanospirillaceae"
## 9b44baa49a601fb4b6c50c312c901778 "Pseudomonadaceae"
## cbb4db0a376d0da10f3409b324e572b3 "Enterobacteriaceae"
## 2926f7065c61a289014e2ef920198e41 "Pseudomonadaceae"
## b90f313249467f3247b2e178108f56c4 "Alteromonadaceae"
## 9fb82f32eb82975222f78b04260eaa3a "Alteromonadaceae"
## 23ccd8e52a41d7ca1cd3f7d18bb747b7 "Oleiphilaceae"
## 2de364e6eaebebbbb28cca6b2ee5f322 "Halomonadaceae"
## 100dda46eb1c9633ba33d459cad7b6d3 "Ectothiorhodospiraceae"
## 2027d883259942129f4653bb8773ccbb "Halomonadaceae"
## adce59f1751d627ceab8dd97f4d04c6f "Moraxellaceae"
## 4be80be705379fe624bf4f236868c161 "Moraxellaceae"
## 0c8e4b53a95f728aad2fb84bbd346f97 "OM60"
## efbb12b0a03e0073ea00bee12f98b36e "[Chromatiaceae]"
## 1d38cdf4c8a50b1ea96f2156356de988 "Enterobacteriaceae"
## 19a6bf2bac2f1eda36feda7b342d2fb5 "Enterobacteriaceae"
## 27105df2940b9391e03c2d80d7f8b4f5 "Enterobacteriaceae"
## 939aeb8878169f64a49619412a2f63b0 "Aeromonadaceae"
## e0e1b66edfc9669ea0d9a6a802bf2788 "Vibrionaceae"
## d89d2a592c1aca630b867e7ccb9e42a6 "Vibrionaceae"
## 5cf7e8ff515a6a5f6104637fd70423c1 "Vibrionaceae"
## 69a578040fb5a9fff8bc026b7909ba83 "Pseudoalteromonadaceae"
## fbf60a3c4454aa9de8e64561fccc5345 "Alteromonadaceae"
## a1d7db2eb229495c2c82b6983acf7e43 "Succinivibrionaceae"
## 17fad4dc8312a2057293bfc76005b8de "Succinivibrionaceae"
## 73dc5d7d8e076fd5a6aeddf13f9ef785 "Xanthomonadaceae"
## 133220fc9566f8823ba6361d973f7e56 "Xanthomonadaceae"
## 11a0aa4ba2b9f7349d89e260f7091c23 "Coxiellaceae"
## 8a8122d28d426c268bc33a6036ee1201 "Legionellaceae"
## 56f83521d186287a1334d08d18f63158 "Nitrosomonadaceae"
## 8987bf7650d847a8389432b1b97b9076 "Methylophilaceae"
## c99ed97ec81f07d7a5bf5e6d39644e78 "Rhodocyclaceae"
## 79d01cf1a57f4ae9b2100a92fc8ccdba "Neisseriaceae"
## 49d4b7fc67aed6a6c15b45b14ec2d0bd "Alcaligenaceae"
## 787102493891f91105723053cb7fa472 "Oxalobacteraceae"
## 83cfc0b49f561f34323bf84f88479fb0 "Pasteurellaceae"
## ed4ce9dc264e70619df3ec76f6551fd6 "Pasteurellaceae"
## ac967d4c0addb4554c76a32d34fd6c95 "Pasteurellaceae"
## 438f1f8281a645f62d60881fd6b0fa57 "Pasteurellaceae"
## 7fc26bb3199fb45b03be3a64086369fc "Alcaligenaceae"
## 69c2a11ae089bcd6b89a7e0e820348a0 "Alcaligenaceae"
## a1a04d3b99a0830ff52c65019cdbf0ae "Alcaligenaceae"
## cb8975338b82a1cde52ea64147755a73 "Comamonadaceae"
## cbcf57af593627cc223bc600b5fb8318 "Comamonadaceae"
## dad64d6402e87f2685829f369810b4da "Comamonadaceae"
## 1d4ba0b34502c3002f4e746231e00d5f "Procabacteriaceae"
## a8f07c39cca53fb138e8007eb22aa6a1 "Neisseriaceae"
## 94ea0cf0f0fc7c8f21b14c876a6531e5 "Neisseriaceae"
## d689bc688fc4d75a7bb96dae07c80129 "Oxalobacteraceae"
## 085877117ce16b29716cb7211f5bf8e0 "Sinobacteraceae"
## 6e8ddec699ec02deed4236f0af079318 "Sinobacteraceae"
## dc5b0a8becafb8ce2ca3326fc498464b "Moraxellaceae"
## 1d4f2df9b6265023cd7a291fd570f21d "Moraxellaceae"
## 9b740e8e047c98bb45cd4dc582c1a7f9 "Moraxellaceae"
## b8a850e18c6624af91cd225fbdefa983 "Xanthomonadaceae"
## e648c38b1b9e6300c7919c49b32f2d6f "Xanthomonadaceae"
## c1889e2c77161500555ea720c5850b61 "Xanthomonadaceae"
## 9b6c084f78f830b31a28de8180814ae8 "Xanthomonadaceae"
## 88242931b35810f68ef8dd396bb1d337 "Xanthomonadaceae"
## 3e155bea0907cecaf362cac4e87deb3d "Xanthomonadaceae"
## 5e55605eb003f98493386574e7670725 "Xanthomonadaceae"
## 14f6c55698300e24e20f0af01fc1362a "Syntrophaceae"
## d59a2064644c08d1dadbbce20f19f527 "Acetobacteraceae"
## 20e66d19c6e48da230746eb8df4fbee9 "Rhodospirillaceae"
## db18ee1beaf8b0931f49185b7e87bb50 "Rhodospirillaceae"
## 5bddc3e2dd40027af0348e3e496b5ede "Hyphomicrobiaceae"
## 98c0af570beeb456ca1529e4b7539b6c "Rhizobiaceae"
## 325c677d23378529799356c93bdbf138 "Aurantimonadaceae"
## 184c1055f8871453d4cfb2e063826c79 "Beijerinckiaceae"
## 8454ff06fc777ee1792f0a92c0a2a3db "Beijerinckiaceae"
## 139b3a842bac5a67836f791535c71ed2 "Methylobacteriaceae"
## b43b837314cfb7aef5d3c3fd8e8142b6 "Beijerinckiaceae"
## 7eaa2034a21192be6ecfaec001f3fa08 "Caulobacteraceae"
## c378c39c2cfe843318ac7345e6189014 "Caulobacteraceae"
## 6669e651c7a9d2b735e9b7d496508cde "Caulobacteraceae"
## 1a7a971d3bcf21592d1ebabf35d100fd "Caulobacteraceae"
## dc367720df5c1ae8d78019dc83dd2e0b "Sphingomonadaceae"
## b8f6759d312f1de655ef951649593ef0 "Sphingomonadaceae"
## 21b486ea16b34f5b7ce3c8224c331d5e "Sphingomonadaceae"
## ffcd590944755753b1d8ae88273c731f "Rhodospirillaceae"
## e522565172c313a3ffddbfc619a2d21b "Rickettsiaceae"
## d96b6207fb8725b32db97bec235ce3d0 "Rhodospirillaceae"
## f8c6df3d56ff7649bc52d0aedbc8e048 "Acidobacteriaceae"
## 405d0bd8bde3bbf8136655339aaffb32 "Elusimicrobiaceae"
## 4f7b6df0faabff63004fd8e4aa84143e "Spirochaetaceae"
## bd450cfd5b93248abf2a4b1ef4e57ae5 "Spirochaetaceae"
## 39832721d381138daa264d1543480827 "[Borreliaceae]"
## 8b9d573892bcf008125b830abb494242 "Nitrospiraceae"
## 22d355b3fc4793261d21a6f9fb219f49 "Thermoanaerobacteraceae"
## 5b34a5582c8a0efd4e8746a39925b754 "Symbiobacteriaceae"
## 7d4cd07fe04d753bf8bcb57dc27f71b1 "Thermoactinomycetaceae"
## 35f15070627d645a49065e8e30004ee4 "Thermoactinomycetaceae"
## 7a282fb1eafde33e74e1af68340132cc "Thermoactinomycetaceae"
## ba38edc1c02e03da1577a96422af5ea0 "Alicyclobacillaceae"
## 55e81e6a020e5d9dd500a0ac51b0b283 "Ktedonobacteraceae"
## ad02c5eee2b39f40fac1f608e9a588d2 "Anaerolinaceae"
## fe81a158a7d2c78cdb8d494c150dab85 "Anaerolinaceae"
## 4088b88f122d38e0d64a1691202e7ee6 "Caldilineaceae"
## 74f297c560f6dad782d11d1b77e88621 "Chloroflexaceae"
## 8c3abd03b35e980141bc63102af4480f "Oscillochloridaceae"
## bf71e327691c4854a681e15b28902a68 "[Kouleothrixaceae]"
## 8971ea6436b3f2f9d4f2f4b1bab4ad01 "Thermaceae"
## 91d9b2a9eb8359f3b10a4ff82eaac7bb "Fibrobacteraceae"
## 815fc729fe3c00d325ab760f6bb74b08 "Gemmatimonadaceae"
## be014e630e00e5c6e3f0ca87daa86d1b "Coriobacteriaceae"
## d443d45b9452b33e2f15317f488a8aff "Coriobacteriaceae"
## 2bc3044df4d1da6e21cdc4a5aa7f2d7c "Coriobacteriaceae"
## 1da892b315515f65dcfd83beb0e171bc "Coriobacteriaceae"
## 84763964b516506d9a5daa198694508a "Coriobacteriaceae"
## 4cf10e8585dbc2b18d3aa2def42863cd "Coriobacteriaceae"
## 044575c49355d2dc1dc328d7f4cccf07 "Coriobacteriaceae"
## 98828518c045dbd013ddf95ed960ff68 "Gaiellaceae"
## 32b519e9b7a8e3207f070845156855a0 "Solirubrobacteraceae"
## e9ab2e1d89fdae4700c6740323ae0d91 "Patulibacteraceae"
## 79746a8c7e32d661ecde6164f1de5cbe "Nitriliruptoraceae"
## c97d71471bfaf2c3e54913809ec72f2a "Propionibacteriaceae"
## 9d2d8b251de60fe5dff92e5e0b4ed3f7 "Streptomycetaceae"
## 468b178baa29eebee837710342a0f910 "Nocardioidaceae"
## 49ce92d31439808d0d1bea75a00d5bfc "Nocardioidaceae"
## 537d15ab7624090dc5c79090bd6a167e "Propionibacteriaceae"
## 6a817ad430bbcadd29c75840b4fd25c4 "Nocardioidaceae"
## 0a8448ddb119a2aa1e0ae86928097f91 "Frankiaceae"
## 62058d158b24b3fbea81b2be7061d67d "Pseudonocardiaceae"
## f80f713bc2c318c2d2e857fa60324f71 "Actinomycetaceae"
## fb96448a13cbd1b35b97f5ea7c9d9f0c "Actinomycetaceae"
## 492710d4b2c77ae8a3887b6b67edf135 "Nocardiopsaceae"
## 399b720f381d18fb6054810664faf3b1 "Nakamurellaceae"
## 4e624224b836599c23297d3c0d738f2c "Nakamurellaceae"
## fe1f9c1511f40357b7ff3f062a9e9a2f "Nakamurellaceae"
## db89f0083e3043374e273f1168399165 "Micromonosporaceae"
## 9606f5b31c4365a210f062af56429ba4 "Micromonosporaceae"
## cf624c989019ccb39a8316fd82969fca "Micromonosporaceae"
## 78bb7782ad610368d38621de127fa83c "Micromonosporaceae"
## 7a4040c73abc580073bdb4eb1d74a33d "Cryptosporangiaceae"
## a63e98d52785ca8e8af60d0804af5dae "Mycobacteriaceae"
## eb07445c23ec6a0baaf838fec7f3f2a5 "Dietziaceae"
## ef289d460d88b8bf99288c9ccafa3de4 "Nocardiaceae"
## d982cb2e9c52d04a131bfd6bfd57143f "Geodermatophilaceae"
## f10abcfb58070db144ab557203b15112 "Geodermatophilaceae"
## 2e3e409911947f6b58055dac76eafff2 "Bifidobacteriaceae"
## 6a8e34c34c852052fbb2ef47f31923cf "Bifidobacteriaceae"
## 69b20ec4a1f82d5d7bfccce73e181144 "Bifidobacteriaceae"
## 2f3464d9017dbcc3c07539e9e6d031d1 "Micrococcaceae"
## 19b23b503d10795479f12bed782e37bf "Dermabacteraceae"
## 13c1dc3da2ab678bb67e738463291f41 "Intrasporangiaceae"
## 0f7c178d133e189017d861892caf1b54 "Intrasporangiaceae"
## 0c416bb1ef62f13288e440253605f1f6 "Brevibacteriaceae"
## a9ea27c012d71729be0af434b0135b8f "Kineosporiaceae"
## 9910430d69cf086a7a32730d88e36ca1 "Kineosporiaceae"
## bc5dc688aca3e85050859ccffb837227 "Actinomycetaceae"
## 6cfcb015a00c6f3fb16e6eec63f4a35c "Micrococcaceae"
## 1034ce7814ed4bb5c4506bc6b75eaa3f "Micrococcaceae"
## 9dc76e20f768b3449b07c21ff7377623 "Microbacteriaceae"
## 4353875d14dabd7fe11946d21ac50b66 "Microbacteriaceae"
## 1c927fead59f669c939d603634ce60e3 "Microbacteriaceae"
## cc06b4a0146591e922e1f9c019a63485 "Microbacteriaceae"
## c2b4b05dc7cde089c596aaaea2349b57 "ACK-M1"
## c0fcac392fda5b2c85f7eff24b4a08ed "Gordoniaceae"
## fdc1a7c3ebe3c43c9205147181cadf6b "Corynebacteriaceae"
## e229fd918de8f64d13ec2a69bab94a5d "Thermomonosporaceae"
## af0d699336503dd28940bf80973df0d1 "Thermomonosporaceae"
## 7beb6afb10d4a33729f38eae58eb86fe "C111"
## 9f213cf8c7852cace5c0bae0997ca479 "Iamiaceae"
## e5516025a4d9f48a9fd7248989289b17 "Xenococcaceae"
## 265b94ca9e486aa0e39696dbf1004bab "Pseudanabaenaceae"
## fc5a4fb7042e9842c36f36e0ab934610 "Chroococcaceae"
## c11850f778c3ed2aad77e905a962df9f "Xenococcaceae"
## e1defeafac8215315915a82ed015dcb2 "Nostocaceae"
## 4b4b20eeb4a4ccbd441b8d2ef9f31bf7 "Nostocaceae"
## 5575e3a3b9446bc439d3a13064c07e21 "Nostocaceae"
## 565f359611711ce61076b0f3f8eb9453 "Nostocaceae"
## 83196c5429def72c900061a0a8c5b49b "Scytonemataceae"
## 0c6f8e3cb66947204cae236072a04a74 "Phormidiaceae"
## 2472bec6d09ab949b643cb1a4f41816b "Pseudanabaenaceae"
## de5d66672c644945370a3bd62bd2caf4 "Pseudanabaenaceae"
## 03ca951e561969caf45da606fde67866 "Trebouxiophyceae"
## d02aa15268aade892ad5dff83af3e7da "Trebouxiophyceae"
## 3cd6ab4607d7c365dfdc11a48bf893c5 "Phormidiaceae"
## 48b2489d2a8ef650129b144899cdf302 "Chlamydomonadaceae"
## 0040892ff482919cb88018e43a333cca "Chlamydomonadaceae"
## a0051aa570b907944f08a912f8bc09fd "Ulvophyceae"
## d49b641988fea3844b9de1e6ad26ee98 "Hyphomicrobiaceae"
## 14e8f8943c5595bbea2cca1cc3c383d0 "Holophagaceae"
## d9b514bc64139095efef65a654a1d0e2 "Holophagaceae"
## f54c0eca0d64aade6c60bbad968da659 "FW"
## 39e9884255a81dfa04b47a2b11e3ef5b "Phycisphaeraceae"
## aa33408e38ea9b07aa856e8e6701b0da "Acidobacteriaceae"
## cf7bf8f703a8335c0d3018f4604f1cb6 "Opitutaceae"
## 31f232781685558bf9d62e35e8f237f9 "Verrucomicrobiaceae"
## b8b9f753c83c855cc38aff497e5e89ce "[Chthoniobacteraceae]"
## 85e29914e803ab4d6fb6602bd6b9ff00 "[Chthoniobacteraceae]"
## d37b60c688fcca90997aadce4c64d5a9 "[Pedosphaeraceae]"
## 107aca9889569069069d195bd8a31697 "[Chthoniobacteraceae]"
## bd3849fc9106f9cdacb9341795c8cb29 "[Chthoniobacteraceae]"
## b5d0c6f1b9e8a8302389f77b79dcda85 "[Chthoniobacteraceae]"
## bd1b5b2bb3a3f6cd721255c7a706da1c "Verrucomicrobiaceae"
## b9bad8448867f57e6a14c1a242c48774 "Verrucomicrobiaceae"
## b22df4733817d748ec348e7f3e6b33eb "Verrucomicrobiaceae"
## 8941145147965d89bfcc4e88c0b9535b "[Chthoniobacteraceae]"
## 0d9178b0087a618145122137d5f02c9d "Thermoanaerobacteraceae"
## 1d44015ea379303fcf6b84e6de3b56fe "Isosphaeraceae"
## abbfa75d6cee07b5d473575e6fc31ca6 "Rhabdochlamydiaceae"
## ebf9bf8eb6025551e0c72b979eadee03 "Simkaniaceae"
## 46d7cb3e670b0a7c6be9f9e87b8a9062 "Parachlamydiaceae"
## 77ade2a27cd5cf184bc7c566b5e40350 "Dethiosulfovibrionaceae"
## a0cdbcafbb2e9ca1d27ec77bf2e8d58d "Synergistaceae"
## a79f2d2819aa6abbb25c3d52f0a6d88e "Deferribacteraceae"
## 9640db4284f6de2f96bc6a089999e1d9 "Leptospiraceae"
## Genus Species
## 738f9b43067c64d7dd19a58e16776ca1 "vadinCA11" NA
## bf3ea7575ee681f6cc071fc10a9b0c9e "Methanosphaera" NA
## 81ca8fa4a795e9929b18c343fa7e5d6d "Methanobrevibacter" NA
## fce80713066a40d6d40c78a2bfc701f0 "u114" NA
## da2d307acbc750e709821f37106a97ee "Sneathia" NA
## ec4dafd949562cb1c67abf1edb908e45 "Streptobacillus" NA
## 937486517cc80db8a7247c8d9cedcb6c "Leptotrichia" NA
## 2960c4868268ab63fffd54d389e709f4 "Mycoplasma" NA
## b1cc0afab8aabe335f3d2183a8f862a8 "Truepera" NA
## d812033144facb838340db156bc7cddb "B-42" NA
## a8d5e516d55e0f840a901a1754faf215 "Deinobacterium" NA
## b3f7ce9240052a0925ec9e675b5c5801 "Deinococcus" NA
## dd2c236c7e7f2b0eca6a81e2ac82e5e9 "CM44" NA
## f572830d714e07d0b571ccb4029c577b "R18-435" NA
## 12c129f217c4ceeb3f4e6992749ee828 "Fimbriimonas" NA
## 1ef109986a98fbad2514a0bdde298328 "Odoribacter" NA
## 550a6c75a980e53ebe63fb821d692cf3 "Parasegitibacter" NA
## 08790daac50cd048ed5839225585e108 "Filimonas" NA
## 9cbea8ff52e16e14d63f27d5f6f9ee70 "Ferruginibacter" NA
## 38876d2e7234ac8c535d914e1b89c7f2 "Terrimonas" NA
## 937da713490e1d08e8727822deaeb6ca "Trachelomonas" NA
## 32756a7fcc03fdddee0c5b2da35b7940 "Solitalea" NA
## 6ba1a63b03ed1667ddedc0813b737f0d "Alistipes" NA
## 23f0414ba47f7c7999f913671268837d "Rikenella" NA
## 5ada85d7be5d55db0cd492bca13b3003 "Cytophaga" NA
## a51c11ce94e4c3cedeeeb25ccda839bb "Bacteroides" NA
## 183f2ec8041f54e28b279213dab7f242 "Paraprevotella" NA
## 3ec9a72eea2934c7e20bf5e3840b3935 "Macellibacteroides" NA
## 6549baa73149f7a4de583300732198e3 "Porphyromonas" NA
## f4871a37ef764e383f723e547ad345d3 "Petrimonas" NA
## 12332a0b15374a26f88d178f33975164 "Barnesiella" NA
## 6fa2a60e9fa2afc9bb356bff76e8aea7 "Lishizhenia" NA
## 7ef9ec92fa1dc4d4b175a2590b38c1e3 "Coccinistipes" NA
## 9d0ce3ffd40f17516f311a4f01ce71c3 "Mucilaginibacter" NA
## 23ebb02f88264051fb546154a4b76f1f "Pedobacter" NA
## 2c2e6c9719c3d353fc8fc4c29277bf3a "Sphingobacterium" NA
## e93b056509933455a642b22131e787f6 "Tenacibaculum" NA
## 2f4128d15aa3f31e65bb6be743cf2652 "Flexibacter" NA
## 82a38739a3d57c68d7488b32235fd9c8 "Persicivirga" NA
## e87605af38d7adbc36e9bf2ccb4b9ed1 "Flavobacterium" NA
## 675f216a655188ee527413d79502e884 "Nonlabens" NA
## fd67289a69cb1b8b911c9c0d5aae561c "Myroides" NA
## 0156833a719406d6720169fa7c1a8c4f "Pseudozobellia" NA
## 394637d50ed3fa18f7ad4e5f459950bf "Yeosuana" NA
## 727cd1eebae3ae24468583a5fd29bf40 "Zhouia" NA
## fe148c0776bd59b90cb0a4d2f18a7431 "Capnocytophaga" NA
## 87b5fc5e91a8d3cc174f4741e97756eb "Weeksella" NA
## 97904005472b49b5a729b1f7470c3bce "Elizabethkingia" NA
## 0d1d623d430214d67ab7dd50d86923eb "Bergeyella" NA
## e0534df6ab1aeb8c188f3b0768b7d5ed "Ornithobacterium" NA
## 7f356ca83a2db14690a64a74ef25a18a "5-7N15" NA
## a88bc39d28216b7fea5c260c1eba645b "CF231" NA
## df0e399449afea146ca01aff07d5422e "[Prevotella]" NA
## 3abf10c0fb708bc94c3ea4dd299e0970 "Prevotella" NA
## 22ec7a68d4ffe650f8dd1151196824ae "YRC22" NA
## 4431ece8c33501e69a7108763af73b9a "Cytophaga" NA
## 943f60dee4de6bf45e42e9305d688b0c "Emticicia" NA
## 2295bf9acbfa418fbcd3b30754f6148e "Leadbetterella" NA
## 0a8e379dd40b23d151f6392ed1a51934 "Cesiribacter" NA
## 4ac7304960d351f3fde8c6b271e02cd1 "Rhodocytophaga" NA
## 74156312fe86d82180dcebd7fa2f1d3b "Marinoscillum" NA
## a6c1c1db83cc085b6f4410843de68aec "Marivirga" NA
## abd4e33c5a5b25b15f743da0ba2d47de "Porifericola" NA
## 88063ce6d940ae9490d8f68ebbe70efd "Rhodonellum" NA
## 76750ffa90fdd5952e8570f9a1fc11f9 "Echinicola" NA
## 0d81c4844619813dd873a65bcf91b75b "Indibacter" NA
## 87ae24a9562a267c0c47df8e04a60f89 "Algoriphagus" NA
## 5e75d3a55ceb4dc7a55910426de76734 "Siphonobacter" NA
## c99b81e959d197f32acce3adc9c4fab5 "Flectobacillus" NA
## 4c16e214394f648bcce3b069ef859388 "Dyadobacter" NA
## bde4c36da80878e658df02d338931982 "Rudanella" NA
## 61899b1d726126ee51b7335a9e17ea3f "Larkinella" NA
## d2585e354502d89dc5e0a6e923551ec4 "Spirosoma" NA
## c5a6d0e5a5aec5fb2aeaea82dea15305 "Rubricoccus" NA
## 46546f341eac9b2125a8e152eef86d82 "Asteroleplasma" NA
## f39b347d2f6c66682fd9982cae666e88 "Succinispira" NA
## 9dbb7cbacf6d05c6f914fd172280c3ff "Acidaminococcus" NA
## 8f9ad93911aa5eaeb33b21f8f7c2c45f "Anaerofustis" NA
## d27c33a2c70998d3ea63eb1ff3cb0221 "rc4-4" NA
## d5167fdceb8a3baf484e932653cce66b "Peptococcus" NA
## 92591f68fc9a379243ba99075a0c1a11 "Halocella" NA
## 7b0402e21e2605b6efc8f9ee96439660 "Sporanaerobacter" NA
## 108ec75ebd3d17a56bfabec9ab334e0e "WAL_1855D" NA
## 49e2fbc314555e9fd5f1accf0fb91af8 "1-68" NA
## f3f29b983fe8c0dfe37668e9d4ae8bc6 "Gallicola" NA
## 569418df588c6249c6525811063aacf5 "Finegoldia" NA
## 65a75861ea5af532e70ba307bf70a9a9 "Parvimonas" NA
## bb3291ec469409c1d58c5b0fdc933ec6 "Haloplasma" NA
## ee9bbcdf5eab5edd0596f444214183cc "Peptoniphilus" NA
## 90fe5379a170a7caa71f8f383f485f2b "Helcococcus" NA
## 0e7f78e494e734305ea59cd0caafa1b8 "Filifactor" NA
## 95b83723ec29f8943be9bb7d717c5a4b "Peptostreptococcus" NA
## 257742c10ede9357a9f59a3217461ae5 "Proteocatella" NA
## 1db331ef1773d7b27b8e386278202b7e "[Clostridium]" NA
## dd5ce8d0b040693d540cb5aaf1b9fb3b "Clostridium" NA
## 9579cc9ad7e64d3305e8aa5e53c667f7 "Sporobacter" NA
## be88e2bee5866989aa7c16c28646cf50 "Oscillospira" NA
## 059e847d26f267fa3730d112f3014b1f "Butyricicoccus" NA
## 23a5e6774a168faddfac530ac1033388 "Ethanoligenens" NA
## f2735c286490a71c359f4d5db6bdd217 "Gemmiger" NA
## ba0596067c4e680406c82c4baa296538 "Subdoligranulum" NA
## f2def42b08374f35a87be49c511de37a "Faecalibacterium" NA
## 8302230fee8b0e524dc372e6e97211e1 "Anaerotruncus" NA
## 8ac67871377691e5f68c2600870352ec "Clostridium" NA
## 75734bf2678c55d2dbbdffa17417ab89 "Ruminococcus" NA
## 198c7b560d46758bcbad890d07833b37 "Bacteroides" NA
## 75bc33d3f4be73b5221a58ddd6e73798 "Dorea" NA
## 62a7641b0fd611f2b5f56840e4afe298 "Papillibacter" NA
## 0c438af5dc97a32a49dc6cf46e911b17 "Propionispora" NA
## f414562b9ba38395a17b663355f405f8 "Ruminococcus" NA
## f1d10bfa443393cfe67263894c84e566 "Lactonifactor" NA
## d862ff0f8f5c9f39ae13f080aa680bb3 "Roseburia" NA
## 702add448b05e3087ea6cecea7dd90b4 "Coprococcus" NA
## a3a479ce8ea08a480c9a96d6cd9c2f62 "Clostridium" NA
## 2546dd1d30f6556190239a0f5c8efad3 "Defluviitalea" NA
## 5891492addacafaf26c9ab65b7c17a3f "Clostridium" NA
## 94f2f98ac7d8d5e8ea731c9c3ee48c86 "Candidatus Arthromitus" NA
## 61880eb94d6e2c60ff0276bccb67c9ec "Christensenella" NA
## 0360a498b5585f9028fa802e6b4f7bf5 "Dialister" NA
## 135ea3e4d147e2cf6e381bd218ca38c2 "Anaerosinus" NA
## 7be1f8896d95573e6ba7523bf6d29546 "Selenomonas" NA
## ab7e93274f5830e83f60e578976747d3 "Megasphaera" NA
## 5ad1971e7c113f850929b1752979a1a5 "Mitsuokella" NA
## cb9fe9ff4eb7853282a4d840335b6fc5 "Megamonas" NA
## d6377ab8698308388991039193fed9e6 "gut" NA
## c002515d386833fd7c4969a03a9aebb5 "Asteroleplasma" NA
## 99acc08c0d8bfce4ad95740ddf504a83 "Clostridium" NA
## 51c88352cb0925e74ba66a7dd7cde265 "Catenibacterium" NA
## a71a5fde3bfe18523396fab08f4e474d "gut" NA
## acaa6fe062445b95590d349c619ff73f "[Eubacterium]" NA
## 77be883e73ff901aea64b7487a80e245 "Bulleidia" NA
## 07ed27499a5612e2a730ef4d4a95cae9 "Holdemania" NA
## 48ae71b68d6954a54eb355054e9ca62a "Anaerorhabdus" NA
## eaa57f77edaae985a5784f41ece4ce33 "Lactococcus" NA
## da3fd1a55a332ea87aa1da2b633d54b2 "Streptococcus" NA
## a62e32c83e169200a7222bc5e937b23b "Staphylococcus" NA
## bdbe4504d2313c7e46d1e5a1b4c502f3 "Macrococcus" NA
## 86599a57e1dcd7a14bdfd8dacbdb29c4 "Sporosarcina" NA
## ff931fa606fa70b98d9cc7339959e1e4 "Kurthia" NA
## 26d9efc3df990145f38903f8fcf86546 "Brevibacillus" NA
## c6f61b95201848ba396fcf8f9f393bd8 "Bacillus" NA
## 2acd7b47e3bfd5c56047c3922a32dc50 "Aneurinibacillus" NA
## 56a8dc24218d559971fd66bfbc07b25e "Paenibacillus" NA
## c8b0264dca035066a4f98e8f5f57a1fd "Saccharibacillus" NA
## 0ad56849fee2b97ca31f66083120f60a "Ammoniphilus" NA
## 0080fef6444702a9598894828d7c6480 "Tuberibacillus" NA
## d24f404d0e184ab79cba846971453bcd "Sinobaca" NA
## 400a504e050fa1e94dbb78a317a91676 "Lacticigenium" NA
## b5d49db9d9ccb60a34050267bfcc36fe "Granulicatella" NA
## 2c234c87c5882dd4f414aec10fa936c2 "Enterococcus" NA
## 0f1caf1bbdbe6b2ca659622ee70d0b63 "Isobaculum" NA
## e5c43f196cbe5ab66faa3c4f467a0886 "Marinilactibacillus" NA
## 6b085c4046ac5ebe8ef6ac62d791bea5 "Alkalibacterium" NA
## c00d929bb5c22936acc74570e3b5bdf6 "Atopostipes" NA
## 1d05ba400871e661d4b6f5d5221ceaa0 "Atopococcus" NA
## 4580887b2b9919823d69f37282c7eb68 "Pediococcus" NA
## 2e398b8d21dc0766b2cf014de5f215f9 "Lactobacillus" NA
## babb2ebb5ca6d5b569dbcd2b4b628198 "Weissella" NA
## bf2c7a63827bc0b6e73780bd35ef1b24 "Leuconostoc" NA
## a5d29f17bd1a64838e0d611fbcdd1ff6 "Abiotrophia" NA
## 3c7e37f4083b0b16aa9124dad86730c7 "Brochothrix" NA
## 045316716e32037c41e0b163bf4d7f21 "Acholeplasma" NA
## d8f53497fb4a7d7ece0196fb9f0a6ab4 "Peredibacter" NA
## 5cfcdb0adca683f26388b734166fa45b "Arcobacter" NA
## d372fbcdc973cce384300297bee0478f "Campylobacter" NA
## ae33131a40a790d5a6e096dfe63a89d8 "Helicobacter" NA
## 187e9220f0344b3c3fa9269ef230fc90 "Desulfuromonas" NA
## 672ee70217e3b5a9235307922a02c7f8 "Bdellovibrio" NA
## 5e056cc118579d9d7c95fe778b8ea768 "Cystobacter" NA
## 9b487aae59ee8631f146add439f853d2 "Phaselicystis" NA
## 1ae19e5736f0e1386f60a9f7c5d78fde "Aetherobacter" NA
## 0ab39039498ea9d85c86e8123448534b "Byssovorax" NA
## 653b92284cc9d8af71788389322f0edd "Polyangium" NA
## e21fc8d6fb72d301fc9c60d5767cce74 "Bilophila" NA
## e8707202237b30ae28569d165c85bf19 "Desulfomicrobium" NA
## f889b0623697ffab382195032c9ad941 "Desulfovibrio" NA
## 305ad58751bd60cdfb4c103af7c099f4 "Desulfocapsa" NA
## 045260d3560e65d1ed7fc1184847d2ab "Nannocystis" NA
## f31d96a0dc85b58019e54c41729a5705 "Simiduia" NA
## 801ac076ebb43dd3c879924efd470f18 "Methylobacter" NA
## 7c71dd18459d57c725a3ad9ec173d5db "Methylosarcina" NA
## 32391b052e2eb6e82b519a21b917701a "Suttonella" NA
## 90023f83f20dc4626e11297485a2a460 "Oceanospirillum" NA
## f79e941eee754904cdc3e35d0786a2bd "Thalassomonas" NA
## 892d322ffc17d6b4821998ef14e94580 "Neptunomonas" NA
## 9b44baa49a601fb4b6c50c312c901778 "Pseudomonas" NA
## cbb4db0a376d0da10f3409b324e572b3 "Pseudomonas" NA
## 2926f7065c61a289014e2ef920198e41 "Serpens" NA
## b90f313249467f3247b2e178108f56c4 "Gilvimarinus" NA
## 9fb82f32eb82975222f78b04260eaa3a "Cellvibrio" NA
## 23ccd8e52a41d7ca1cd3f7d18bb747b7 "Oleiphilus" NA
## 2de364e6eaebebbbb28cca6b2ee5f322 "Halomonas" NA
## 100dda46eb1c9633ba33d459cad7b6d3 "Thioalkalivibrio" NA
## 2027d883259942129f4653bb8773ccbb "Haererehalobacter" NA
## adce59f1751d627ceab8dd97f4d04c6f "Alkanindiges" NA
## 4be80be705379fe624bf4f236868c161 "Acinetobacter" NA
## 0c8e4b53a95f728aad2fb84bbd346f97 "Haliea" NA
## efbb12b0a03e0073ea00bee12f98b36e "Rheinheimera" NA
## 1d38cdf4c8a50b1ea96f2156356de988 "Pantoea" NA
## 19a6bf2bac2f1eda36feda7b342d2fb5 "Proteus" NA
## 27105df2940b9391e03c2d80d7f8b4f5 "Brenneria" NA
## 939aeb8878169f64a49619412a2f63b0 "Aeromonas" NA
## e0e1b66edfc9669ea0d9a6a802bf2788 "Listonella" NA
## d89d2a592c1aca630b867e7ccb9e42a6 "Vibrio" NA
## 5cf7e8ff515a6a5f6104637fd70423c1 "Enterovibrio" NA
## 69a578040fb5a9fff8bc026b7909ba83 "Pseudoalteromonas" NA
## fbf60a3c4454aa9de8e64561fccc5345 "Alteromonas" NA
## a1d7db2eb229495c2c82b6983acf7e43 "Succinivibrio" NA
## 17fad4dc8312a2057293bfc76005b8de "Anaerobiospirillum" NA
## 73dc5d7d8e076fd5a6aeddf13f9ef785 "Wohlfahrtiimonas" NA
## 133220fc9566f8823ba6361d973f7e56 "Ignatzschineria" NA
## 11a0aa4ba2b9f7349d89e260f7091c23 "Rickettsiella" NA
## 8a8122d28d426c268bc33a6036ee1201 "Legionella" NA
## 56f83521d186287a1334d08d18f63158 "Nitrosospira" NA
## 8987bf7650d847a8389432b1b97b9076 "Methylotenera" NA
## c99ed97ec81f07d7a5bf5e6d39644e78 "Azospira" NA
## 79d01cf1a57f4ae9b2100a92fc8ccdba "Iodobacter" NA
## 49d4b7fc67aed6a6c15b45b14ec2d0bd "Bordetella" NA
## 787102493891f91105723053cb7fa472 "Massilia" NA
## 83cfc0b49f561f34323bf84f88479fb0 "Pasteurella" NA
## ed4ce9dc264e70619df3ec76f6551fd6 "Nicoletella" NA
## ac967d4c0addb4554c76a32d34fd6c95 "Bibersteinia" NA
## 438f1f8281a645f62d60881fd6b0fa57 "Actinobacillus" NA
## 7fc26bb3199fb45b03be3a64086369fc "Pigmentiphaga" NA
## 69c2a11ae089bcd6b89a7e0e820348a0 "Kerstersia" NA
## a1a04d3b99a0830ff52c65019cdbf0ae "Achromobacter" NA
## cb8975338b82a1cde52ea64147755a73 "Acidovorax" NA
## cbcf57af593627cc223bc600b5fb8318 "Sphaerotilus" NA
## dad64d6402e87f2685829f369810b4da "Limnobacter" NA
## 1d4ba0b34502c3002f4e746231e00d5f "Procabacter" NA
## a8f07c39cca53fb138e8007eb22aa6a1 "Kingella" NA
## 94ea0cf0f0fc7c8f21b14c876a6531e5 "Neisseria" NA
## d689bc688fc4d75a7bb96dae07c80129 "Pseudoburkholderia" NA
## 085877117ce16b29716cb7211f5bf8e0 "Sinobacter" NA
## 6e8ddec699ec02deed4236f0af079318 "Alkanibacter" NA
## dc5b0a8becafb8ce2ca3326fc498464b "Psychrobacter" NA
## 1d4f2df9b6265023cd7a291fd570f21d "Moraxella" NA
## 9b740e8e047c98bb45cd4dc582c1a7f9 "Enhydrobacter" NA
## b8a850e18c6624af91cd225fbdefa983 "Fulvimonas" NA
## e648c38b1b9e6300c7919c49b32f2d6f "Rhodanobacter" NA
## c1889e2c77161500555ea720c5850b61 "Aquimonas" NA
## 9b6c084f78f830b31a28de8180814ae8 "Lysobacter" NA
## 88242931b35810f68ef8dd396bb1d337 "Thermomonas" NA
## 3e155bea0907cecaf362cac4e87deb3d "Achromobacter" NA
## 5e55605eb003f98493386574e7670725 "Pseudoxanthomonas" NA
## 14f6c55698300e24e20f0af01fc1362a "Syntrophus" NA
## d59a2064644c08d1dadbbce20f19f527 "Roseomonas" NA
## 20e66d19c6e48da230746eb8df4fbee9 "Skermanella" NA
## db18ee1beaf8b0931f49185b7e87bb50 "Defluviicoccus" NA
## 5bddc3e2dd40027af0348e3e496b5ede "Rhodomicrobium" NA
## 98c0af570beeb456ca1529e4b7539b6c "Rhizobium" NA
## 325c677d23378529799356c93bdbf138 "Aurantimonas" NA
## 184c1055f8871453d4cfb2e063826c79 "Methylocapsa" NA
## 8454ff06fc777ee1792f0a92c0a2a3db "Salinarimonas" NA
## 139b3a842bac5a67836f791535c71ed2 "Methylobacterium" NA
## b43b837314cfb7aef5d3c3fd8e8142b6 "Chelatococcus" NA
## 7eaa2034a21192be6ecfaec001f3fa08 "Caulobacter" NA
## c378c39c2cfe843318ac7345e6189014 "Nitrobacteria" NA
## 6669e651c7a9d2b735e9b7d496508cde "Asticcacaulis" NA
## 1a7a971d3bcf21592d1ebabf35d100fd "Brevundimonas" NA
## dc367720df5c1ae8d78019dc83dd2e0b "Sphingosinicella" NA
## b8f6759d312f1de655ef951649593ef0 "Sphingomonas" NA
## 21b486ea16b34f5b7ce3c8224c331d5e "Novosphingobium" NA
## ffcd590944755753b1d8ae88273c731f "magnetite-containing" NA
## e522565172c313a3ffddbfc619a2d21b "Wolbachia" NA
## d96b6207fb8725b32db97bec235ce3d0 "Reyranella" NA
## f8c6df3d56ff7649bc52d0aedbc8e048 "Acidopila" NA
## 405d0bd8bde3bbf8136655339aaffb32 "Elusimicrobium" NA
## 4f7b6df0faabff63004fd8e4aa84143e "Treponema" NA
## bd450cfd5b93248abf2a4b1ef4e57ae5 "Spirochaeta" NA
## 39832721d381138daa264d1543480827 "Spironema" NA
## 8b9d573892bcf008125b830abb494242 "Nitrospira" NA
## 22d355b3fc4793261d21a6f9fb219f49 "Ammonifex" NA
## 5b34a5582c8a0efd4e8746a39925b754 "Symbiobacterium" NA
## 7d4cd07fe04d753bf8bcb57dc27f71b1 "Planifilum" NA
## 35f15070627d645a49065e8e30004ee4 "Laceyella" NA
## 7a282fb1eafde33e74e1af68340132cc "Thermoactinomyces" NA
## ba38edc1c02e03da1577a96422af5ea0 "Alicyclobacillus" NA
## 55e81e6a020e5d9dd500a0ac51b0b283 "Ktedonobacter" NA
## ad02c5eee2b39f40fac1f608e9a588d2 "Leptolinea" NA
## fe81a158a7d2c78cdb8d494c150dab85 "Anaerolinea" NA
## 4088b88f122d38e0d64a1691202e7ee6 "Litorilinea" NA
## 74f297c560f6dad782d11d1b77e88621 "Chloronema" NA
## 8c3abd03b35e980141bc63102af4480f "Oscillochloris" NA
## bf71e327691c4854a681e15b28902a68 "Kouleothrix" NA
## 8971ea6436b3f2f9d4f2f4b1bab4ad01 "Thermus" NA
## 91d9b2a9eb8359f3b10a4ff82eaac7bb "Fibrobacter" NA
## 815fc729fe3c00d325ab760f6bb74b08 "Gemmatimonas" NA
## be014e630e00e5c6e3f0ca87daa86d1b "Atopobium" NA
## d443d45b9452b33e2f15317f488a8aff "Collinsella" NA
## 2bc3044df4d1da6e21cdc4a5aa7f2d7c "Eggerthella" NA
## 1da892b315515f65dcfd83beb0e171bc "Paraeggerthella" NA
## 84763964b516506d9a5daa198694508a "Enterococcus" NA
## 4cf10e8585dbc2b18d3aa2def42863cd "Slackia" NA
## 044575c49355d2dc1dc328d7f4cccf07 "Olsenella" NA
## 98828518c045dbd013ddf95ed960ff68 "Gaiella" NA
## 32b519e9b7a8e3207f070845156855a0 "Solirubrobacter" NA
## e9ab2e1d89fdae4700c6740323ae0d91 "Patulibacter" NA
## 79746a8c7e32d661ecde6164f1de5cbe "Nitriliruptor" NA
## c97d71471bfaf2c3e54913809ec72f2a "Brooklawnia" NA
## 9d2d8b251de60fe5dff92e5e0b4ed3f7 "Streptomyces" NA
## 468b178baa29eebee837710342a0f910 "Nocardioides" NA
## 49ce92d31439808d0d1bea75a00d5bfc "Kribbella" NA
## 537d15ab7624090dc5c79090bd6a167e "Microlunatus" NA
## 6a817ad430bbcadd29c75840b4fd25c4 "Marmoricola" NA
## 0a8448ddb119a2aa1e0ae86928097f91 "Kaistibacter" NA
## 62058d158b24b3fbea81b2be7061d67d "Actinomycetospora" NA
## f80f713bc2c318c2d2e857fa60324f71 "Varibaculum" NA
## fb96448a13cbd1b35b97f5ea7c9d9f0c "Actinomyces" NA
## 492710d4b2c77ae8a3887b6b67edf135 "Nocardiopsis" NA
## 399b720f381d18fb6054810664faf3b1 "Nakamurella" NA
## 4e624224b836599c23297d3c0d738f2c "Saxeibacter" NA
## fe1f9c1511f40357b7ff3f062a9e9a2f "Humicoccus" NA
## db89f0083e3043374e273f1168399165 "Catenuloplanes" NA
## 9606f5b31c4365a210f062af56429ba4 "Micromonospora" NA
## cf624c989019ccb39a8316fd82969fca "Rugosimonospora" NA
## 78bb7782ad610368d38621de127fa83c "Actinoplanes" NA
## 7a4040c73abc580073bdb4eb1d74a33d "Cryptosporangium" NA
## a63e98d52785ca8e8af60d0804af5dae "Mycobacterium" NA
## eb07445c23ec6a0baaf838fec7f3f2a5 "Dietzia" NA
## ef289d460d88b8bf99288c9ccafa3de4 "Rhodococcus" NA
## d982cb2e9c52d04a131bfd6bfd57143f "Actinotelluria" NA
## f10abcfb58070db144ab557203b15112 "Blastococcus" NA
## 2e3e409911947f6b58055dac76eafff2 "Gardnerella" NA
## 6a8e34c34c852052fbb2ef47f31923cf "Bifidobacterium" NA
## 69b20ec4a1f82d5d7bfccce73e181144 "Aeriscardovia" NA
## 2f3464d9017dbcc3c07539e9e6d031d1 "Arthrobacter" NA
## 19b23b503d10795479f12bed782e37bf "Helcobacillus" NA
## 13c1dc3da2ab678bb67e738463291f41 "Ornithinimicrobium" NA
## 0f7c178d133e189017d861892caf1b54 "Oryzihumus" NA
## 0c416bb1ef62f13288e440253605f1f6 "Brevibacterium" NA
## a9ea27c012d71729be0af434b0135b8f "Kineococcus" NA
## 9910430d69cf086a7a32730d88e36ca1 "Kineosporia" NA
## bc5dc688aca3e85050859ccffb837227 "Trueperella" NA
## 6cfcb015a00c6f3fb16e6eec63f4a35c "Micrococcus" NA
## 1034ce7814ed4bb5c4506bc6b75eaa3f "Rothia" NA
## 9dc76e20f768b3449b07c21ff7377623 "Leifsonia" NA
## 4353875d14dabd7fe11946d21ac50b66 "Frondihabitans" NA
## 1c927fead59f669c939d603634ce60e3 "Labedella" NA
## cc06b4a0146591e922e1f9c019a63485 "Pseudoclavibacter" NA
## c2b4b05dc7cde089c596aaaea2349b57 "Planktophila" NA
## c0fcac392fda5b2c85f7eff24b4a08ed "Millisia" NA
## fdc1a7c3ebe3c43c9205147181cadf6b "Corynebacterium" NA
## e229fd918de8f64d13ec2a69bab94a5d "Actinomadura" NA
## af0d699336503dd28940bf80973df0d1 "Actinoallomurus" NA
## 7beb6afb10d4a33729f38eae58eb86fe "Ilumatobacter" NA
## 9f213cf8c7852cace5c0bae0997ca479 "Iamia" NA
## e5516025a4d9f48a9fd7248989289b17 "Chroococcidiopsis" NA
## 265b94ca9e486aa0e39696dbf1004bab "Leptolyngbya" NA
## fc5a4fb7042e9842c36f36e0ab934610 "Chroococcus" NA
## c11850f778c3ed2aad77e905a962df9f "Pleurocapsa" NA
## e1defeafac8215315915a82ed015dcb2 "Nostoc" NA
## 4b4b20eeb4a4ccbd441b8d2ef9f31bf7 "Toxopsis" NA
## 5575e3a3b9446bc439d3a13064c07e21 "Tolypothrix" NA
## 565f359611711ce61076b0f3f8eb9453 "Cylindrospermum" NA
## 83196c5429def72c900061a0a8c5b49b "Brasilonema" NA
## 0c6f8e3cb66947204cae236072a04a74 "Phormidium" NA
## 2472bec6d09ab949b643cb1a4f41816b "Pseudanabaena" NA
## de5d66672c644945370a3bd62bd2caf4 "Phormidium" NA
## 03ca951e561969caf45da606fde67866 "Coccomyxa" NA
## d02aa15268aade892ad5dff83af3e7da "Chloroidium" NA
## 3cd6ab4607d7c365dfdc11a48bf893c5 "Arthrospira" NA
## 48b2489d2a8ef650129b144899cdf302 "Dunaliella" NA
## 0040892ff482919cb88018e43a333cca "Acutodesmus" NA
## a0051aa570b907944f08a912f8bc09fd "Avrainvillea" NA
## d49b641988fea3844b9de1e6ad26ee98 "Hyphomicrobium" NA
## 14e8f8943c5595bbea2cca1cc3c383d0 "Geothrix" NA
## d9b514bc64139095efef65a654a1d0e2 "Holophaga" NA
## f54c0eca0d64aade6c60bbad968da659 "4-29" NA
## 39e9884255a81dfa04b47a2b11e3ef5b "Phycisphaera" NA
## aa33408e38ea9b07aa856e8e6701b0da "Granulicella" NA
## cf7bf8f703a8335c0d3018f4604f1cb6 "Opitutus" NA
## 31f232781685558bf9d62e35e8f237f9 "Akkermansia" NA
## b8b9f753c83c855cc38aff497e5e89ce "DA101" NA
## 85e29914e803ab4d6fb6602bd6b9ff00 "Candidatus Xiphinematobacter" NA
## d37b60c688fcca90997aadce4c64d5a9 "Pedosphaera" NA
## 107aca9889569069069d195bd8a31697 "Ellin506" NA
## bd3849fc9106f9cdacb9341795c8cb29 "OR-59" NA
## b5d0c6f1b9e8a8302389f77b79dcda85 "Chthoniobacter" NA
## bd1b5b2bb3a3f6cd721255c7a706da1c "Prosthecobacter" NA
## b9bad8448867f57e6a14c1a242c48774 "Haloferula" NA
## b22df4733817d748ec348e7f3e6b33eb "Verrucomicrobium" NA
## 8941145147965d89bfcc4e88c0b9535b "heteroC45_4W" NA
## 0d9178b0087a618145122137d5f02c9d "Thermacetogenium" NA
## 1d44015ea379303fcf6b84e6de3b56fe "Nostocoida" NA
## abbfa75d6cee07b5d473575e6fc31ca6 "Candidatus Rhabdochlamydia" NA
## ebf9bf8eb6025551e0c72b979eadee03 "Simkania" NA
## 46d7cb3e670b0a7c6be9f9e87b8a9062 "Parachlamydia" NA
## 77ade2a27cd5cf184bc7c566b5e40350 "Pyramidobacter" NA
## a0cdbcafbb2e9ca1d27ec77bf2e8d58d "Cloacibacillus" NA
## a79f2d2819aa6abbb25c3d52f0a6d88e "Mucispirillum" NA
## 9640db4284f6de2f96bc6a089999e1d9 "Turneriella" NA
Kphyseq.tax.level@sam_data
## litter litter_number sample sample_type timing litter_type
## 10 ND Ind 2 5 KM?NN4 Pw-PD fresh Diarrhoea
## 11 ND Ind 3 6 WR6YN5 B Pw-D fresh Diarrhoea
## 12 ND Ind 3 6 WR6NN11 W-R fresh Diarrhoea
## 13 ND Ind 3 6 WR6NN5 A Pw-PD fresh Diarrhoea
## 14 Normal Ind 1 14 MC2NY7 Pw-N fresh Normal
## 23 Normal Ind 1 14 MC2NN10 W-N fresh Normal
## 24 Normal Ind 2 12 20-KH1NN4 Pw-N fresh Normal
## 25 Normal Ind 2 12 20-KH1NN10 W-N fresh Normal
## 26 ND Litter 1 7 LL?YN8 B Pw-D overnight Diarrhoea
## 27 ND Litter 2 8 CR?YN4 2A Pw-D overnight Diarrhoea
## 28 ND Litter 3 9 HC?YN4 B Pw-D overnight Diarrhoea
## 29 ND Litter 4 16 JE4YN11 Pw-D fresh Diarrhoea
## 30 ND Litter 6 1 NE?YN1 Pw-D overnight Diarrhoea
## 31 ND Litter 7 2 SE3YN2 Pw-D fresh Diarrhoea
## 32 ND Litter 8 10 TE1YN7 Pw-D fresh Diarrhoea
## 33 ND Litter 9 3 JE3YN2 Pw-D fresh Diarrhoea
## 34 ND Litter 10 4 NH21-2YN2 Pw-D fresh Diarrhoea
## 35 ND Litter 11 13 NE22-?YN1 A Pw-D fresh Diarrhoea
## 36 Normal Ind 3 11 AM4NN8 Pw-N fresh Normal
## 37 Normal Ind 3 11 AM4NN12 W-N fresh Normal
## 38 Normal Ind 4 12 20-KH2NN5 Pw-N fresh Normal
## 39 ND Litter 2 8 CR3NN10 W-R fresh Diarrhoea
## 40 ND Litter 3 9 HC1NN8 W-R fresh Diarrhoea
## 41 ND Litter 4 16 JE?NN12 B W-R overnight Diarrhoea
## 42 ND Litter 6 1 NE4NN6 W-R fresh Diarrhoea
## 43 ND Litter 7 2 SE3NN11 W-R fresh Diarrhoea
## 44 ND Litter 8 10 TE?NN11 A W-R overnight Diarrhoea
## 45 ND Litter 9 3 JE2NN8 W-R fresh Diarrhoea
## 46 ND Litter 10 4 NH21-3NN12 W-R fresh Diarrhoea
## 47 ND Litter 11 13 NE22-5NN10 W-R fresh Diarrhoea
## 48 Normal Ind 4 12 20-KH2NN12 W-N fresh Normal
## 49 Normal Ind 5 12 20-KH3NN5 Pw-N fresh Normal
## 5 ND Ind 1 15 NH4YN7 B Pw-D fresh Diarrhoea
## 50 Normal Ind 5 12 20-KH3NN10 B W-N fresh Normal
## 6 ND Ind 1 15 NH4NY9 W-R fresh Diarrhoea
## 62 ND Litter 2 8 CR?NN4 v1 Pw-PD overnight Diarrhoea
## 63 ND Litter 3 9 HC?NN2 Pw-PD overnight Diarrhoea
## 65 ND Litter 6 1 NE?NN1 Pw-PD overnight Diarrhoea
## 66 ND Litter 7 2 SE?NN1 C Pw-PD overnight Diarrhoea
## 67 ND Litter 8 10 TE?NN5 A Pw-PD overnight Diarrhoea
## 68 ND Litter 9 3 JE?NN1 A Pw-PD fresh Diarrhoea
## 69 ND Litter 10 4 NH21-?NN1 Pw-PD overnight Diarrhoea
## 7 ND Ind 1 15 NH?NN6A Pw-PD overnight Diarrhoea
## 70 ND Litter 11 13 NE22-?NN1 A Pw-PD fresh Diarrhoea
## 71 ND Litter 1 7 LL4NN11 W-R fresh Diarrhoea
## 8 ND Ind 2 5 KM2YY6 Pw-D fresh Diarrhoea
## 9 ND Ind 2 5 KM2NN10 W-R fresh Diarrhoea
## a61 ND Litter 1 7 LL?NN6 Pw-PD fresh Diarrhoea
## a64 ND Litter 4 16 JE?NN6A Pw-PD overnight Diarrhoea
## kittenID sample_cat diarrhoea treatment owner breed dob
## 10 litter litter N N Breeder2 Burmese 21/01/2019
## 11 6 individual Y N Breeder1 Siamese 22/08/2018
## 12 6 individual N N Breeder1 Siamese 22/08/2018
## 13 6 individual N N Breeder1 Siamese 22/08/2018
## 14 2 individual N Y Breeder2 Burmese 9/03/2019
## 23 2 individual N N Breeder2 Burmese 9/03/2019
## 24 1 individual N N FNU DSH 18/04/2020
## 25 1 individual N N FNU DSH 18/04/2020
## 26 litter litter Y N Breeder3 Burmese 7/02/2019
## 27 litter litter Y N Breeder1 Siamese 27/08/2018
## 28 litter litter Y N Breeder1 Siamese 6/08/2018
## 29 4 litter Y N FNU DSH 7/03/2019
## 30 litter litter Y N FNU DSH 8/11/2020
## 31 3 litter Y N FNU DSH 4/11/2020
## 32 1 litter Y N FNU DSH 13/03/2019
## 33 3 litter Y N FNU DSH 11/03/2021
## 34 2 litter Y N FNU DSH 13/08/2021
## 35 litter litter Y N FNU DSH 17/02/2022
## 36 4 individual N N Breeder3 Burmese 11/02/2019
## 37 4 individual N N Breeder3 Burmese 11/02/2019
## 38 2 individual N N FNU DSH 18/04/2020
## 39 3 litter N N Breeder1 Siamese 27/08/2018
## 40 1 litter N N Breeder1 Siamese 6/08/2018
## 41 litter litter N N FNU DSH 7/03/2019
## 42 4 litter N N FNU DSH 8/11/2020
## 43 3 litter N N FNU DSH 4/11/2020
## 44 litter litter N N FNU DSH 13/03/2019
## 45 2 litter N N FNU DSH 11/03/2021
## 46 3 litter N N FNU DSH 13/08/2021
## 47 5 litter N N FNU DSH 17/02/2022
## 48 2 individual N N FNU DSH 18/04/2020
## 49 3 individual N N FNU DSH 18/04/2020
## 5 4 litter Y Y FNU DSH 11/03/2019
## 50 3 individual N N FNU DSH 18/04/2020
## 6 4 litter N Y FNU DSH 11/03/2019
## 62 litter litter N N Breeder1 Siamese 27/08/2018
## 63 litter litter N N Breeder1 Siamese 6/08/2018
## 65 litter litter N N FNU DSH 8/11/2020
## 66 litter litter N N FNU DSH 4/11/2020
## 67 litter litter N N FNU DSH 13/03/2019
## 68 litter litter N N FNU DSH 11/03/2021
## 69 litter litter N N FNU DSH 13/08/2021
## 7 litter litter N N FNU DSH 11/03/2019
## 70 litter litter N N FNU DSH 17/02/2022
## 71 4 litter N N Breeder3 Burmese 7/02/2019
## 8 2 litter Y Y Breeder2 Burmese 21/01/2019
## 9 2 litter N N Breeder2 Burmese 21/01/2019
## a61 litter litter N N Breeder3 Burmese 7/02/2019
## a64 litter litter N N FNU DSH 7/03/2019
## weaning_date age_weaned_wk age_weaned_day date_collected week age_wk
## 10 8/04/2019 11 77 4/03/2019 4 6
## 11 12/11/2018 12 82 9/10/2018 5 7
## 12 12/11/2018 12 82 20/11/2018 11 13
## 13 12/11/2018 12 82 9/10/2018 5 7
## 14 11/05/2019 9 63 24/04/2019 7 7
## 23 11/05/2019 9 63 15/05/2019 10 10
## 24 11/06/2020 8 54 12/06/2020 4 8
## 25 11/06/2020 8 54 23/07/2020 10 14
## 26 1/05/2019 12 83 3/04/2019 8 8
## 27 7/11/2018 10 72 6/10/2018 4 6
## 28 28/09/2018 8 53 3/10/2018 4 8
## 29 17/04/2019 6 41 21/05/2019 11 11
## 30 4/01/2021 8 57 9/12/2020 1 4
## 31 4/01/2021 9 61 8/12/2020 2 5
## 32 17/04/2019 5 35 26/04/2019 7 6
## 33 1/06/2021 12 82 20/04/2021 2 6
## 34 10/10/2021 8 58 30/09/2021 2 7
## 35 6/05/2022 11 78 24/03/2022 1 5
## 36 1/05/2019 11 79 3/04/2019 8 7
## 37 1/05/2019 11 79 1/05/2019 12 11
## 38 11/06/2020 8 54 18/06/2020 5 9
## 39 7/11/2018 10 72 13/11/2018 10 11
## 40 28/09/2018 8 53 30/10/2018 8 12
## 41 17/04/2019 6 41 28/05/2019 12 12
## 42 4/01/2021 8 57 12/01/2021 6 9
## 43 4/01/2021 9 61 11/02/2021 11 14
## 44 17/04/2019 5 35 21/05/2019 11 10
## 45 1/06/2021 12 82 2/06/2021 8 12
## 46 10/10/2021 8 58 9/12/2021 12 17
## 47 6/05/2022 11 78 26/05/2022 10 14
## 48 11/06/2020 8 54 3/08/2020 12 15
## 49 11/06/2020 8 54 18/06/2020 5 9
## 5 17/04/2019 5 37 26/04/2019 7 7
## 50 11/06/2020 8 54 24/07/2020 10 14
## 6 17/04/2019 5 37 7/05/2019 9 8
## 62 7/11/2018 10 72 4/10/2018 4 5
## 63 28/09/2018 8 53 19/09/2018 2 6
## 65 4/01/2021 8 57 9/12/2020 1 4
## 66 4/01/2021 9 61 3/12/2020 1 4
## 67 17/04/2019 5 35 10/04/2019 5 4
## 68 1/06/2021 12 82 13/04/2021 1 5
## 69 10/10/2021 8 58 17/09/2021 1 5
## 7 17/04/2019 5 37 17/04/2019 6 5
## 70 6/05/2022 11 78 24/03/2022 1 5
## 71 1/05/2019 12 83 24/04/2019 11 11
## 8 8/04/2019 11 77 18/03/2019 6 8
## 9 8/04/2019 11 77 15/04/2019 6 12
## a61 1/05/2019 12 83 20/03/2019 6 6
## a64 17/04/2019 6 41 17/04/2019 6 6
## age_day sample.....weaning Date_solids_started wk_solids_started
## 10 42 -5 25/02/2019 5
## 11 48 -5 3/10/2018 6
## 12 90 1 3/10/2018 6
## 13 48 -5 3/10/2018 6
## 14 46 -2 17/04/2019 6
## 23 67 1 17/04/2019 6
## 24 55 0 22/05/2020 5
## 25 96 6 22/05/2020 5
## 26 55 -4 11/03/2019 5
## 27 40 -5 4/10/2018 5
## 28 58 1 19/09/2018 6
## 29 75 5 2/04/2019 4
## 30 31 -4 7/12/2020 4
## 31 34 -4 1/12/2020 4
## 32 44 1 2/04/2019 3
## 33 40 -6 13/04/2021 5
## 34 48 -1 24/09/2021 6
## 35 35 -6 14/03/2022 4
## 36 51 -4 29/03/2019 7
## 37 79 0 29/03/2019 7
## 38 61 1 22/05/2020 5
## 39 78 1 4/10/2018 5
## 40 85 5 19/09/2018 6
## 41 82 6 2/04/2019 4
## 42 65 1 7/12/2020 4
## 43 99 5 1/12/2020 4
## 44 69 5 2/04/2019 3
## 45 83 0 13/04/2021 5
## 46 118 9 24/09/2021 6
## 47 98 3 14/03/2022 4
## 48 107 8 22/05/2020 5
## 49 61 1 22/05/2020 5
## 5 46 1 2/04/2019 3
## 50 97 6 22/05/2020 5
## 6 57 3 2/04/2019 3
## 62 38 -5 4/10/2018 5
## 63 44 -1 19/09/2018 6
## 65 31 -4 7/12/2020 4
## 66 29 -5 1/12/2020 4
## 67 28 -1 2/04/2019 3
## 68 33 -7 13/04/2021 5
## 69 35 -3 24/09/2021 6
## 7 37 0 2/04/2019 3
## 70 35 -6 14/03/2022 4
## 71 76 -1 11/03/2019 5
## 8 56 -3 25/02/2019 5
## 9 84 1 25/02/2019 5
## a61 41 -6 11/03/2019 5
## a64 41 0 2/04/2019 4
## day_solids_started nursing... site medication
## 10 35 1 Genevieve kitten room <NA>
## 11 42 1 Levin <NA>
## 12 42 7 Levin <NA>
## 13 42 1 Levin <NA>
## 14 39 1 Genevieve kitten room queen on panacur
## 23 39 4 Genevieve kitten room Chlorsig night before
## 24 34 3 FNU kitten room <NA>
## 25 34 9 FNU kitten room <NA>
## 26 32 3 CY house bedroom <NA>
## 27 38 0 PN <NA>
## 28 44 2 Levin <NA>
## 29 26 7 Qaurintine room <NA>
## 30 29 0 FNU <NA>
## 31 27 1 FNU <NA>
## 32 20 3 Qaurintine room <NA>
## 33 33 1 FNU <NA>
## 34 42 1 Hallway kitten room <NA>
## 35 25 1 Hallway kitten room <NA>
## 36 46 1 CY house bedroom <NA>
## 37 46 5 CY house bedroom <NA>
## 38 34 4 FNU kitten room <NA>
## 39 38 6 Cahills <NA>
## 40 44 6 Levin <NA>
## 41 26 8 Qaurintine room <NA>
## 42 29 5 day room <NA>
## 43 27 10 FNU <NA>
## 44 20 7 Qaurintine room <NA>
## 45 33 7 FNU <NA>
## 46 42 11 Hallway kitten room <NA>
## 47 25 10 Hallway kitten room <NA>
## 48 34 10 Saw dust room <NA>
## 49 34 4 FNU kitten room <NA>
## 5 22 3 Qaurintine room Antibiotics
## 50 34 9 FNU kitten room <NA>
## 6 22 5 Qaurintine room Antibiotics
## 62 38 0 PN <NA>
## 63 44 0 Levin <NA>
## 65 29 0 FNU <NA>
## 66 27 0 FNU <NA>
## 67 20 1 Qaurintine room <NA>
## 68 33 0 Hallway kitten room <NA>
## 69 42 -1 Hallway kitten room <NA>
## 7 22 2 Qaurintine room <NA>
## 70 25 1 Hallway kitten room <NA>
## 71 32 6 CY house bedroom <NA>
## 8 35 3 Genevieve kitten room Panacur
## 9 35 7 Catery out the back <NA>
## a61 32 1 CY house bedroom <NA>
## a64 26 2 Qaurintine room <NA>
## mdiet kdiet weaning_status
## 10 wet + biscuits wet + biscuits peri-weaning
## 11 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 12 raw + wet + biscuits raw + wet + biscuits weaned
## 13 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 14 wet + biscuits wet + biscuits peri-weaning
## 23 wet + biscuits wet + biscuits weaned
## 24 wet + biscuits wet + biscuits weaned
## 25 wet + biscuits wet + biscuits weaned
## 26 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 27 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 28 raw + wet + biscuits raw + wet + biscuits weaned
## 29 wet + biscuits wet + biscuits weaned
## 30 wet + biscuits wet + biscuits peri-weaning
## 31 wet + biscuits wet + biscuits peri-weaning
## 32 wet + biscuits wet + biscuits weaned
## 33 wet + biscuits wet + biscuits peri-weaning
## 34 wet + biscuits wet + biscuits peri-weaning
## 35 wet + biscuits wet + biscuits peri-weaning
## 36 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 37 raw + wet + biscuits raw + wet + biscuits weaned
## 38 wet + biscuits wet + biscuits weaned
## 39 raw + wet + biscuits raw + wet + biscuits weaned
## 40 raw + wet + biscuits raw + wet + biscuits weaned
## 41 wet + biscuits wet + biscuits weaned
## 42 wet + biscuits wet + biscuits weaned
## 43 wet + biscuits wet + biscuits weaned
## 44 wet + biscuits wet + biscuits weaned
## 45 wet + biscuits wet + biscuits weaned
## 46 wet + biscuits wet + biscuits weaned
## 47 wet + biscuits wet + biscuits weaned
## 48 wet + biscuits wet + biscuits weaned
## 49 wet + biscuits wet + biscuits weaned
## 5 wet + biscuits wet + biscuits weaned
## 50 wet + biscuits wet + biscuits weaned
## 6 wet + biscuits wet + biscuits weaned
## 62 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 63 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 65 wet + biscuits wet + biscuits peri-weaning
## 66 wet + biscuits wet + biscuits peri-weaning
## 67 wet + biscuits wet + biscuits peri-weaning
## 68 wet + biscuits wet + biscuits peri-weaning
## 69 wet + biscuits wet + biscuits nursing
## 7 wet + biscuits wet + biscuits peri-weaning
## 70 wet + biscuits wet + biscuits peri-weaning
## 71 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 8 wet + biscuits wet + biscuits peri-weaning
## 9 wet + biscuits wet + biscuits weaned
## a61 raw + wet + biscuits raw + wet + biscuits peri-weaning
## a64 wet + biscuits wet + biscuits peri-weaning
Kphyseq.tax.level@sam_data[Kphyseq.tax.level@sam_data$sample_type == "Pw-PD",]
## litter litter_number sample sample_type timing litter_type
## 10 ND Ind 2 5 KM?NN4 Pw-PD fresh Diarrhoea
## 13 ND Ind 3 6 WR6NN5 A Pw-PD fresh Diarrhoea
## 62 ND Litter 2 8 CR?NN4 v1 Pw-PD overnight Diarrhoea
## 63 ND Litter 3 9 HC?NN2 Pw-PD overnight Diarrhoea
## 65 ND Litter 6 1 NE?NN1 Pw-PD overnight Diarrhoea
## 66 ND Litter 7 2 SE?NN1 C Pw-PD overnight Diarrhoea
## 67 ND Litter 8 10 TE?NN5 A Pw-PD overnight Diarrhoea
## 68 ND Litter 9 3 JE?NN1 A Pw-PD fresh Diarrhoea
## 69 ND Litter 10 4 NH21-?NN1 Pw-PD overnight Diarrhoea
## 7 ND Ind 1 15 NH?NN6A Pw-PD overnight Diarrhoea
## 70 ND Litter 11 13 NE22-?NN1 A Pw-PD fresh Diarrhoea
## a61 ND Litter 1 7 LL?NN6 Pw-PD fresh Diarrhoea
## a64 ND Litter 4 16 JE?NN6A Pw-PD overnight Diarrhoea
## kittenID sample_cat diarrhoea treatment owner breed dob
## 10 litter litter N N Breeder2 Burmese 21/01/2019
## 13 6 individual N N Breeder1 Siamese 22/08/2018
## 62 litter litter N N Breeder1 Siamese 27/08/2018
## 63 litter litter N N Breeder1 Siamese 6/08/2018
## 65 litter litter N N FNU DSH 8/11/2020
## 66 litter litter N N FNU DSH 4/11/2020
## 67 litter litter N N FNU DSH 13/03/2019
## 68 litter litter N N FNU DSH 11/03/2021
## 69 litter litter N N FNU DSH 13/08/2021
## 7 litter litter N N FNU DSH 11/03/2019
## 70 litter litter N N FNU DSH 17/02/2022
## a61 litter litter N N Breeder3 Burmese 7/02/2019
## a64 litter litter N N FNU DSH 7/03/2019
## weaning_date age_weaned_wk age_weaned_day date_collected week age_wk
## 10 8/04/2019 11 77 4/03/2019 4 6
## 13 12/11/2018 12 82 9/10/2018 5 7
## 62 7/11/2018 10 72 4/10/2018 4 5
## 63 28/09/2018 8 53 19/09/2018 2 6
## 65 4/01/2021 8 57 9/12/2020 1 4
## 66 4/01/2021 9 61 3/12/2020 1 4
## 67 17/04/2019 5 35 10/04/2019 5 4
## 68 1/06/2021 12 82 13/04/2021 1 5
## 69 10/10/2021 8 58 17/09/2021 1 5
## 7 17/04/2019 5 37 17/04/2019 6 5
## 70 6/05/2022 11 78 24/03/2022 1 5
## a61 1/05/2019 12 83 20/03/2019 6 6
## a64 17/04/2019 6 41 17/04/2019 6 6
## age_day sample.....weaning Date_solids_started wk_solids_started
## 10 42 -5 25/02/2019 5
## 13 48 -5 3/10/2018 6
## 62 38 -5 4/10/2018 5
## 63 44 -1 19/09/2018 6
## 65 31 -4 7/12/2020 4
## 66 29 -5 1/12/2020 4
## 67 28 -1 2/04/2019 3
## 68 33 -7 13/04/2021 5
## 69 35 -3 24/09/2021 6
## 7 37 0 2/04/2019 3
## 70 35 -6 14/03/2022 4
## a61 41 -6 11/03/2019 5
## a64 41 0 2/04/2019 4
## day_solids_started nursing... site medication
## 10 35 1 Genevieve kitten room <NA>
## 13 42 1 Levin <NA>
## 62 38 0 PN <NA>
## 63 44 0 Levin <NA>
## 65 29 0 FNU <NA>
## 66 27 0 FNU <NA>
## 67 20 1 Qaurintine room <NA>
## 68 33 0 Hallway kitten room <NA>
## 69 42 -1 Hallway kitten room <NA>
## 7 22 2 Qaurintine room <NA>
## 70 25 1 Hallway kitten room <NA>
## a61 32 1 CY house bedroom <NA>
## a64 26 2 Qaurintine room <NA>
## mdiet kdiet weaning_status
## 10 wet + biscuits wet + biscuits peri-weaning
## 13 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 62 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 63 raw + wet + biscuits raw + wet + biscuits peri-weaning
## 65 wet + biscuits wet + biscuits peri-weaning
## 66 wet + biscuits wet + biscuits peri-weaning
## 67 wet + biscuits wet + biscuits peri-weaning
## 68 wet + biscuits wet + biscuits peri-weaning
## 69 wet + biscuits wet + biscuits nursing
## 7 wet + biscuits wet + biscuits peri-weaning
## 70 wet + biscuits wet + biscuits peri-weaning
## a61 raw + wet + biscuits raw + wet + biscuits peri-weaning
## a64 wet + biscuits wet + biscuits peri-weaning
colSums(Kphyseq.tax.level@otu_table)
## 10 11 12 13 14 23 24 25 26 27 28 29 30
## 77742 50715 71124 75685 52757 35533 15887 36901 45104 39235 31112 61767 34095
## 31 32 33 34 35 36 37 38 39 40 41 42 43
## 47768 69142 33168 55177 51753 41583 43099 25375 48774 57293 64862 31003 56873
## 44 45 46 47 48 49 5 50 6 62 63 65 66
## 48234 55614 50909 55065 56661 61779 81689 70145 56336 63554 70758 47569 36623
## 67 68 69 7 70 71 8 9 a61 a64
## 43765 39515 46707 49432 67719 69897 38256 67082 60880 30219
sample_variables(Kphyseq.tax.level)
## [1] "litter" "litter_number" "sample"
## [4] "sample_type" "timing" "litter_type"
## [7] "kittenID" "sample_cat" "diarrhoea"
## [10] "treatment" "owner" "breed"
## [13] "dob" "weaning_date" "age_weaned_wk"
## [16] "age_weaned_day" "date_collected" "week"
## [19] "age_wk" "age_day" "sample.....weaning"
## [22] "Date_solids_started" "wk_solids_started" "day_solids_started"
## [25] "nursing..." "site" "medication"
## [28] "mdiet" "kdiet" "weaning_status"
# filter out low abundance data
Kphyseq.tax.level <- phyloseq_filter_prevalence(Kphyseq.tax.level, prev.trh = 0.05, abund.trh = 100, threshold_condition = "AND", abund.type = "total")
#prev.trh = Prevalence threshold (default, 0.05 = 5% of samples)
#abund.trh = Abundance threshold (default, NULL). Abundance threshold defines if the OTU should be preserved if its abundance is larger than threshold (e.g., >= 50 reads)
#threshold_condition = Indicates whether OTU should be kept if it occurs in many samples AND/OR it has high abundance - type of prevalence and abundance conditions, can be "OR" (default) or "AND"
#abund.type= Character string indicating which type of OTU abundance to take into account for filtering ("total", "mean", or "median")
otu_data <- as.matrix(Kphyseq.tax.level@otu_table@.Data)
otu_data <- t(otu_data)
otu_data <- as.data.frame(otu_data)
meta_data <- as.matrix(Kphyseq.tax.level@sam_data)
meta_data <- as.data.frame(meta_data)
###############################################################
## Setting up colour palette
qual_col_pals <- brewer.pal.info[brewer.pal.info$category == 'qual',] ## Set up colour libary
col_vector <- unlist(mapply(brewer.pal, qual_col_pals$maxcolors, rownames(qual_col_pals)))
group_colours <- sample(col_vector, length(levels(as.factor(meta_data$Treatment))))
cols <- group_colours[as.factor(meta_data$Treatment)]
## PCoA
dist = phyloseq::distance(Kphyseq.tax.level, method="bray")
ordination = ordinate(Kphyseq, method="PCoA", distance=dist)
plot_ordination(Kphyseq, ordination, color="sample_type") +
theme_classic() +
theme(strip.background = element_blank())

## PCoA suing base R - cmdscale = Classical multidimensional scaling (MDS) of a data matrix. Also known as principal coordinates analysis (Gower, 1966). PCoA focuses on distances, and it tries to extract the dimensions that account for the maximum distances.
pcoa.res <- cmdscale(vegdist(otu_data, method = "bray"), k = 3, eig = T, add = T)
## PLotting PCoA
#plot(pcoa.res$points[,1],pcoa.res$points[,2],cex=2, bg = cols, pch = 21, frame=F,lwd=1,cex.axis=1.4,cex.lab=1.4,
# xlab=paste("\nPC1 (",round(pcoa.res$eig*100/sum(pcoa.res$eig),1)[1],"%)",sep=""),
# ylab=paste("\nPC2 (",round(pcoa.res$eig*100/sum(pcoa.res$eig),1)[2],"%)",sep="")) +
# box(bty="l",lwd=3)
#devtools::install_github("kassambara/factoextra")
library(factoextra)
## Welcome! Want to learn more? See two factoextra-related books at https://goo.gl/ve3WBa
## PCA - testing out 2 plotting methods, factoextra or using base R.
#PCA focuses on shared variance: it tries to summarize multiple variables in the minimum number of components so that each component explains the most variance
# caluclating the PCA
pca <- prcomp(otu_data, scale=T)
# Looking at variables and scree plots
var <- get_pca_var(pca)
var
## Principal Component Analysis Results for variables
## ===================================================
## Name Description
## 1 "$coord" "Coordinates for the variables"
## 2 "$cor" "Correlations between variables and dimensions"
## 3 "$cos2" "Cos2 for the variables"
## 4 "$contrib" "contributions of the variables"
head(var$contrib)
## Dim.1 Dim.2 Dim.3 Dim.4
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.99133881 0.45614369 3.642328e-01 0.78514069
## ec4dafd949562cb1c67abf1edb908e45 1.29717694 0.01550891 1.170733e-01 0.22579697
## b1cc0afab8aabe335f3d2183a8f862a8 1.71839186 0.03824469 4.468427e-05 0.18780578
## b3f7ce9240052a0925ec9e675b5c5801 1.93992591 0.11594028 3.319966e-03 0.01584156
## 1ef109986a98fbad2514a0bdde298328 0.03763307 3.42961024 3.085988e+00 2.59209992
## 9cbea8ff52e16e14d63f27d5f6f9ee70 1.10979434 0.40604714 2.812402e-04 2.49633712
## Dim.5 Dim.6 Dim.7
## 81ca8fa4a795e9929b18c343fa7e5d6d 1.4819724349 1.1160745617 0.1152091978
## ec4dafd949562cb1c67abf1edb908e45 1.0313042892 0.2465431634 0.0315765608
## b1cc0afab8aabe335f3d2183a8f862a8 0.3877467479 0.1754777260 0.0005895772
## b3f7ce9240052a0925ec9e675b5c5801 0.0272060070 0.0096039999 0.0116769217
## 1ef109986a98fbad2514a0bdde298328 0.0002095305 0.0002278446 0.8941002019
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.8489500014 2.4800138050 0.2231236436
## Dim.8 Dim.9 Dim.10
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.0324233016 0.01744615 2.361473e-01
## ec4dafd949562cb1c67abf1edb908e45 0.4020349552 0.09600739 4.465574e-02
## b1cc0afab8aabe335f3d2183a8f862a8 0.0486447856 0.00145492 1.996208e-01
## b3f7ce9240052a0925ec9e675b5c5801 0.0007407732 0.02585790 4.395408e-07
## 1ef109986a98fbad2514a0bdde298328 2.6954574122 1.72003915 1.924115e-04
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.0445532679 0.02896760 3.609794e-01
## Dim.11 Dim.12 Dim.13
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.071818827 0.26682880 0.9483523047
## ec4dafd949562cb1c67abf1edb908e45 0.008556601 1.21053689 2.6943417036
## b1cc0afab8aabe335f3d2183a8f862a8 0.977271886 0.03062932 0.6098532008
## b3f7ce9240052a0925ec9e675b5c5801 0.064520433 0.02191747 0.0005528226
## 1ef109986a98fbad2514a0bdde298328 0.015908370 0.08434262 0.5944299005
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.197988248 1.11191196 0.2933101662
## Dim.14 Dim.15 Dim.16
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.2631087836 0.10126818 0.6916258595
## ec4dafd949562cb1c67abf1edb908e45 0.6818424624 0.80026285 0.3441446454
## b1cc0afab8aabe335f3d2183a8f862a8 0.0107894363 0.02120740 0.1327334217
## b3f7ce9240052a0925ec9e675b5c5801 0.0012749420 0.04225956 0.0759392759
## 1ef109986a98fbad2514a0bdde298328 1.0126549663 0.88502334 0.8232562705
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.0004766762 0.02836171 0.0006720674
## Dim.17 Dim.18 Dim.19
## 81ca8fa4a795e9929b18c343fa7e5d6d 2.105124829 1.366161654 1.681728369
## ec4dafd949562cb1c67abf1edb908e45 0.943217358 0.166833713 1.246926299
## b1cc0afab8aabe335f3d2183a8f862a8 0.112399287 0.327966851 0.051972983
## b3f7ce9240052a0925ec9e675b5c5801 0.132448382 0.009161588 0.004901838
## 1ef109986a98fbad2514a0bdde298328 0.007922522 0.059450168 0.020889020
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.920686586 0.000191096 0.184934028
## Dim.20 Dim.21 Dim.22 Dim.23
## 81ca8fa4a795e9929b18c343fa7e5d6d 1.484045310 0.04092130 0.693081912 0.235694943
## ec4dafd949562cb1c67abf1edb908e45 0.003380843 0.02335840 0.106797340 0.201070445
## b1cc0afab8aabe335f3d2183a8f862a8 0.219963258 0.03100119 0.267110233 0.061784911
## b3f7ce9240052a0925ec9e675b5c5801 0.008215939 0.02478590 0.014116942 0.006435548
## 1ef109986a98fbad2514a0bdde298328 0.309935157 0.23132896 0.006678032 0.092184949
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.381331546 0.05710211 1.059878764 0.031031080
## Dim.24 Dim.25 Dim.26 Dim.27
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.662302893 0.02934144 0.54525802 3.345670e-03
## ec4dafd949562cb1c67abf1edb908e45 0.371550745 0.06090551 0.08621185 6.099378e-04
## b1cc0afab8aabe335f3d2183a8f862a8 0.515185636 0.01670611 0.12311612 5.494894e-01
## b3f7ce9240052a0925ec9e675b5c5801 0.007047173 0.01928606 0.03528348 5.562205e-05
## 1ef109986a98fbad2514a0bdde298328 0.011372173 0.09159426 0.02756274 1.339824e-02
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.058335995 0.11465810 0.02567864 3.457176e-02
## Dim.28 Dim.29 Dim.30 Dim.31
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.22056618 0.159496877 0.026285420 0.74832961
## ec4dafd949562cb1c67abf1edb908e45 1.05370467 0.073534430 0.577498743 0.37598003
## b1cc0afab8aabe335f3d2183a8f862a8 0.59373830 0.369446428 0.001759332 0.05954969
## b3f7ce9240052a0925ec9e675b5c5801 0.02608621 0.083650268 0.003413911 0.40290511
## 1ef109986a98fbad2514a0bdde298328 0.02526283 0.874224269 0.195834707 0.09477652
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.06234552 0.006053637 0.031131171 3.08904266
## Dim.32 Dim.33 Dim.34 Dim.35
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.03951025 1.020543116 0.10086962 3.01107568
## ec4dafd949562cb1c67abf1edb908e45 0.66653903 0.588766936 2.29493097 0.56171016
## b1cc0afab8aabe335f3d2183a8f862a8 0.02480338 0.126411151 0.09464603 0.01082605
## b3f7ce9240052a0925ec9e675b5c5801 0.08125452 0.010382105 0.23782079 0.50790257
## 1ef109986a98fbad2514a0bdde298328 1.79766288 0.828053532 0.64128973 3.15756803
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.05542938 0.001488246 0.05053153 0.17311244
## Dim.36 Dim.37 Dim.38
## 81ca8fa4a795e9929b18c343fa7e5d6d 3.984619e-03 3.5435643846 0.28092574
## ec4dafd949562cb1c67abf1edb908e45 3.014952e-01 0.0428825797 0.18163044
## b1cc0afab8aabe335f3d2183a8f862a8 1.140902e-02 0.0805191290 0.15689718
## b3f7ce9240052a0925ec9e675b5c5801 3.296466e-02 0.0002418222 0.02332261
## 1ef109986a98fbad2514a0bdde298328 5.897139e-02 1.9126121012 0.16954077
## 9cbea8ff52e16e14d63f27d5f6f9ee70 8.165878e-05 0.0806269522 0.54728741
## Dim.39 Dim.40 Dim.41 Dim.42
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.84066915 0.13466278 0.4891507 1.46769527
## ec4dafd949562cb1c67abf1edb908e45 0.10944051 1.26820599 0.2077982 0.35818677
## b1cc0afab8aabe335f3d2183a8f862a8 0.10512062 0.13101858 0.7892217 0.53857883
## b3f7ce9240052a0925ec9e675b5c5801 0.26729308 0.09834058 0.1410963 0.23988890
## 1ef109986a98fbad2514a0bdde298328 0.08279706 1.87189404 1.9459330 0.06785926
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.38149245 0.20320898 0.1336117 0.35200644
## Dim.43 Dim.44 Dim.45
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.007642705 1.810808985 1.27141450
## ec4dafd949562cb1c67abf1edb908e45 0.013962026 0.024767869 0.06516522
## b1cc0afab8aabe335f3d2183a8f862a8 0.599097705 0.292863003 0.06936333
## b3f7ce9240052a0925ec9e675b5c5801 0.436130349 0.420238340 0.15507621
## 1ef109986a98fbad2514a0bdde298328 2.144055297 4.377650139 9.41056412
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.077727765 0.006702592 2.36474947
## Dim.46 Dim.47 Dim.48
## 81ca8fa4a795e9929b18c343fa7e5d6d 0.3186201452 0.0402092983 0.017587430
## ec4dafd949562cb1c67abf1edb908e45 0.2334219437 0.0004454219 0.002960035
## b1cc0afab8aabe335f3d2183a8f862a8 1.1845988100 0.2910916186 0.114618827
## b3f7ce9240052a0925ec9e675b5c5801 0.0006471038 0.1885303769 0.018252652
## 1ef109986a98fbad2514a0bdde298328 2.0022877598 0.3584233180 6.245092048
## 9cbea8ff52e16e14d63f27d5f6f9ee70 0.1586563323 0.7411641697 0.090524586
## Dim.49
## 81ca8fa4a795e9929b18c343fa7e5d6d 11.2692785
## ec4dafd949562cb1c67abf1edb908e45 1.8389099
## b1cc0afab8aabe335f3d2183a8f862a8 2.1135890
## b3f7ce9240052a0925ec9e675b5c5801 0.5596421
## 1ef109986a98fbad2514a0bdde298328 0.1592758
## 9cbea8ff52e16e14d63f27d5f6f9ee70 3.4035705
fviz_pca_var(pca, col.var = "black")

fviz_pca_var(pca, col.var="contrib",
gradient.cols = c("#00AFBB", "#E7B800", "#FC4E07"),
repel = TRUE # Avoid text overlapping
)

fviz_contrib(pca, choice = "var", axes = 1, top = 10)

#pdf("Kphyseq_PCA.pdf",height=6,width=8,pointsize=15)
fviz_pca_ind(pca,
habillage = meta_data$sample_type, # color by sample type
addEllipses = T,
ellipse.level=0.95,
legend.title = "Sample type",
repel = F,
pointsize = 3,
label = "none",
geom="point",
invisible="quali",
ggtheme = theme_bw())

#dev.off()
###### Working to PLSDA ########################################################################
## using base R
grp <- "sample_type"
cols <- c("cornflowerblue","gold", "orange", "purple", "green", "pink")[as.factor(meta_data[,grp])]
eigs <- pca$sdev^2
eigs / sum(eigs)
## [1] 3.727273e-01 5.893710e-02 4.636826e-02 3.872259e-02 3.092701e-02
## [6] 2.972575e-02 2.815171e-02 2.458349e-02 2.335775e-02 2.179461e-02
## [11] 2.094482e-02 1.983032e-02 1.971037e-02 1.890147e-02 1.815546e-02
## [16] 1.645922e-02 1.586850e-02 1.535524e-02 1.358035e-02 1.325778e-02
## [21] 1.237912e-02 1.139682e-02 1.054847e-02 1.043613e-02 9.853225e-03
## [26] 9.106677e-03 8.968893e-03 8.218947e-03 7.690762e-03 6.999454e-03
## [31] 6.708383e-03 6.052930e-03 5.779889e-03 5.646422e-03 4.946627e-03
## [36] 4.113569e-03 3.769103e-03 3.536379e-03 2.929205e-03 2.632044e-03
## [41] 2.324206e-03 2.239932e-03 1.606036e-03 1.453440e-03 1.174727e-03
## [46] 9.587481e-04 7.508943e-04 4.198617e-04 7.350751e-32
var.explained <- eigs / sum(eigs)
var.explained <- var.explained*100
#plot(pca$x[,1],pca$x[,2],cex=1.5, pch = 21, frame=F,lwd=1,cex.axis=1.4,cex.lab=1.4, bg = cols,
# xlab=paste("\nPC1 (",round(as.numeric(var.explained[1]),1),"%)",sep=""),
# ylab=paste("\nPC2 (",round(as.numeric(var.explained[2]),1),"%)",sep="")) + box(bty="l",lwd=3)
## PLSDA
plsda.res <- splsda(otu_data, as.factor(meta_data$sample_type),ncomp = 3, max.iter = 2000)
#pdf("Kphyseq_sPLDA_sampletype.pdf",height=6,width=8,pointsize=15)
plotIndiv(plsda.res, legend = T, title = "Sample type sPLSDA", ellipse = T, ind.names = T)

#dev.off()
########## Phylogeny profile#############################
## phylogeny profile
## All dataset sample type at phylum level
phylogeny_profile(Kphyseq_norm_genus_prop_top, classification = 'Genus',
treatment = "sample_type", merge = TRUE,
relative_abundance = TRUE)
## Warning in conglomerate_taxa(phyloseq_obj, classification, hierarchical =
## FALSE): trees cannot be preserved after taxa conglomeration

####################
## taxa_abundance_bars
## All dataset sample type at phylum level
filtered_objA <- taxa_filter(Kphyseq, frequency = 0.8)
taxa_abundance_bars(filtered_objA, classification = 'Genus',
treatment = "sample_type")

#################
## Alpha diversity graph
## All dataset for sample type
alpha_diversity_graph(Kphyseq_norm_genus_prop, index = 'shannon', treatment = "sample_type",
subset = NULL, colors = 'default')

alpha_diversity_graph(Kphyseq_norm_genus_prop_top, index = 'shannon', treatment = "sample_type",
subset = NULL, colors = 'default')

#############################################################################
#---------------------------------------------------------------------------------------------------
## PCOA phyloseq
## all dataset for sample type
pcoa_phyloseq(Kphyseq_norm_genus_prop_top, "sample_type", circle = TRUE)

pcoa_phyloseq(Kphyseq_norm_genus_prop, "sample_type", circle = TRUE)

#dev.off()
###########################################################################################################
###################################################################
##### Maternal diet Graphics
#pdf("Kphyseq_Maternal diet analysis.pdf",height=6,width=8,pointsize=15)
## PCOA phyloseq
pcoa_phyloseq(Kphyseq_norm, "mdiet", circle = TRUE)

#################
## taxa_abundance_bars
## All dataset sample type at phylum level
filtered_objA <- taxa_filter(Kphyseq, frequency = 0.8)
taxa_abundance_bars(filtered_objA, classification = 'Genus',
treatment = "mdiet")

################################
##### Phylogeny profile
## All dataset sample type at genus level
phylogeny_profile(Kphyseq_norm_genus_prop_top, classification = 'Genus',
treatment = "mdiet", merge = TRUE,
relative_abundance = TRUE)

####################################################
## Alpha diversity graph
## All dataset for sample type
alpha_diversity_graph(Kphyseq_norm, index = 'shannon', treatment = "mdiet",
subset = NULL, colors = 'default')

#############################
##Alpha diversity
##https://www.nicholas-ollberding.com/post/introduction-to-phyloseq/
head(estimate_richness(Kphyseq))
## Observed Chao1 se.chao1 ACE se.ACE Shannon Simpson
## X10 467 467.0185 0.1416587 467.5622 10.798213 4.084574 0.9702991
## X11 396 396.0476 0.2288603 397.0564 9.942537 3.770247 0.9574684
## X12 413 413.0200 0.1476714 413.5525 10.151408 3.726533 0.9541814
## X13 665 665.0312 0.1824670 665.8932 12.862596 3.763168 0.9420338
## X14 398 398.0164 0.1326892 398.6201 9.968236 3.715440 0.9574987
## X23 548 548.0508 0.2372249 548.8994 11.700436 3.958817 0.9366669
## InvSimpson Fisher
## X10 33.66896 63.80074
## X11 23.51194 54.90173
## X12 21.82518 56.75878
## X13 17.25142 95.84068
## X14 23.52872 55.82140
## X23 15.78952 81.39638
(B <- plot_richness(Kphyseq, x = "mdiet", color = "mdiet", measures = c("Observed", "Shannon", "Chao1")))

B + labs(x = "", y = "Alpha Diversity Measure\n") +
geom_boxplot()

######
## PCA
#pdf("Kphyseq_PCA_mdiet.pdf",height=6,width=8,pointsize=15)
fviz_pca_ind(pca,
habillage = meta_data$mdiet, # color by mdiet
addEllipses = T,
ellipse.level=0.95,
legend.title = "Maternal Diet",
repel = F,
pointsize = 3,
label = "none",
geom="point",
invisible="quali",
ggtheme = theme_bw())

#dev.off()
####
## PLSDA
plsda.resM <- splsda(otu_data, as.factor(meta_data$mdiet),ncomp = 3, max.iter = 2000)
#pdf("Kphyseq_sPLDA_sampletype.pdf",height=6,width=8,pointsize=15)
plotIndiv(plsda.resM, legend = T, title = "Maternal diet sPLSDA", ellipse = T, ind.names = T)

#dev.off()
#dev.off()
#######################################################################################
################################################################################
#####################################
##Kitten diet
## PCOA phyloseq
#pdf("Kphyseq_Kitten diet analysis.pdf",height=6,width=8,pointsize=15)
pcoa_phyloseq(Kphyseq_norm, "kdiet", circle = TRUE)

#################
## taxa_abundance_bars
## All dataset sample type at phylum level
filtered_objA <- taxa_filter(Kphyseq, frequency = 0.8)
taxa_abundance_bars(filtered_objA, classification = 'Genus',
treatment = "kdiet")

################################
##### Phylogeny profile
phylogeny_profile(Kphyseq_norm_genus_prop_top, classification = 'Genus',
treatment = "kdiet", merge = TRUE,
relative_abundance = TRUE)

####################################################
## Alpha diversity graph
alpha_diversity_graph(Kphyseq, index = 'shannon', treatment = "kdiet",
subset = NULL, colors = 'default')

#############################
##Alpha diversity
##https://www.nicholas-ollberding.com/post/introduction-to-phyloseq/
head(estimate_richness(Kphyseq))
## Observed Chao1 se.chao1 ACE se.ACE Shannon Simpson
## X10 467 467.0185 0.1416587 467.5622 10.798213 4.084574 0.9702991
## X11 396 396.0476 0.2288603 397.0564 9.942537 3.770247 0.9574684
## X12 413 413.0200 0.1476714 413.5525 10.151408 3.726533 0.9541814
## X13 665 665.0312 0.1824670 665.8932 12.862596 3.763168 0.9420338
## X14 398 398.0164 0.1326892 398.6201 9.968236 3.715440 0.9574987
## X23 548 548.0508 0.2372249 548.8994 11.700436 3.958817 0.9366669
## InvSimpson Fisher
## X10 33.66896 63.80074
## X11 23.51194 54.90173
## X12 21.82518 56.75878
## X13 17.25142 95.84068
## X14 23.52872 55.82140
## X23 15.78952 81.39638
(C <- plot_richness(Kphyseq, x = "kdiet", color = "kdiet", measures = c("Observed", "Shannon", "Chao1")))

C + labs(x = "", y = "Alpha Diversity Measure\n") +
geom_boxplot()

######
## PCA
#pdf("Kphyseq_PCA_mdiet.pdf",height=6,width=8,pointsize=15)
fviz_pca_ind(pca,
habillage = meta_data$kdiet, # color by kdiet
addEllipses = T,
ellipse.level=0.95,
legend.title = "Kitten Diet",
repel = F,
pointsize = 3,
label = "none",
geom="point",
invisible="quali",
ggtheme = theme_bw())

#dev.off()
####
## PLSDA
plsda.resK <- splsda(otu_data, as.factor(meta_data$kdiet),ncomp = 3, max.iter = 2000)
#pdf("Kphyseq_sPLDA_sampletype.pdf",height=6,width=8,pointsize=15)
plotIndiv(plsda.resK, legend = T, title = "Kitten diet sPLSDA", ellipse = T, ind.names = T)

#dev.off()
#dev.off()
#####################################################################################
#######################################################################
###################################################
##PLSDA sample type and maternal diet
#pdf("Kphyseq_sample type diet PLSDA comparison.pdf",height=6,width=8,pointsize=15)
plotIndiv(plsda.res, ind.names = FALSE,
group = meta_data$sample_type,
pch = as.factor(meta_data$mdiet) ,
legend = TRUE, title = 'Sample type by maternal diet PLSDA',
legend.title = 'Sample Type',
legend.title.pch = 'Maternal Diet',
point.lwd =1, star = FALSE, ellipse = T,)

##PLSDA sample type and kitten diet
plotIndiv(plsda.res, ind.names = FALSE,
group = meta_data$sample_type,
pch = as.factor(meta_data$kdiet) ,
legend = TRUE, title = 'Sample type by Kitten diet PLSDA',
legend.title = 'Sample Type',
legend.title.pch = 'Kitten Diet',
point.lwd =1, star = FALSE, ellipse = T,)

#dev.off()
############################################################################################
#pdf("Kphyseq_alpha diversity boxplot graph.pdf",height=6,width=8,pointsize=15)
par(mfrow=c(1,2))
## Alpha diversity graph
alpha_diversity_graph(Kphyseq, index = 'shannon', treatment = "sample_type",
subset = c("Pw-PD", "Pw-D", "W-R"), colors = 'default')

alpha_diversity_graph(Kphyseq, index = 'shannon', treatment = "sample_type",
subset = c("Pw-N", "W-N"), colors = 'default')

#dev.off()
#pdf("kphyseq_alpha diversity line graph.pdf",height=6,width=8,pointsize=15)
#par(mfrow=c(1,2))
###How to get the plot richness to work with the subsets of sample type??
#dev.off()
#--------------------------------------------------------------------------------
##PLSDA sample type and owner
#pdf("Kphyseq_sample type and owner PLSDA comparison.pdf",height=6,width=8,pointsize=15)
plotIndiv(plsda.res, ind.names = FALSE,
group = meta_data$sample_type,
pch = as.factor(meta_data$owner) ,
legend = TRUE, title = 'Sample type by owner PLSDA',
legend.title = 'Sample Type',
legend.title.pch = 'owner',
point.lwd =1, star = FALSE, ellipse = T,)

##PLSDA sample type and owner
plotIndiv(plsda.res, ind.names = FALSE,
group = meta_data$sample_type,
pch = as.factor(meta_data$owner) ,
legend = TRUE, title = 'Sample type by owner PLSDA',
legend.title = 'Sample Type',
legend.title.pch = 'owner',
point.lwd =1, star = FALSE, ellipse = T,)

#dev.off()
######---------------------------------------------------------------------------------------
## PCOA phyloseq
#pdf("Kphyseq_owner analysis.pdf",height=6,width=8,pointsize=15)
pcoa_phyloseq(Kphyseq_norm, "owner", circle = TRUE)

#dev.off()
#----------------------------------------------------------------------------------------------
taxa_proportions(Kphyseq_norm_genus, 'Genus', treatment = NULL)
## Genus Proportion
## <char> <num>
## 1: Bacteroides 0.2791
## 2: Prevotella 0.2416
## 3: [Prevotella] 0.1315
## 4: Succinivibrio 0.0177
## 5: Anaerobiospirillum 0.0383
## ---
## 375: Roseomonas 0.0000
## 376: Haloplasma 0.0000
## 377: Helcococcus 0.0000
## 378: R18-435 0.0000
## 379: Marivirga 0.0000
view(taxa_proportions(Kphyseq_norm_genus, 'Genus', treatment = NULL))
#--------------------------------------------------------------------------------------------------------------------------------
###Run for kdiet, sample_type, owner, queenKitten
##### code found from = https://f1000research.com/articles/5-1492/v1
top <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N]
N2 <- 20
top2 <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N2]
N3 <- 30
top3 <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N3]
Kphyseq_norm_genus_top <- prune_taxa(top3, Kphyseq_norm_genus)
plot_abundance = function(Kphyseq_norm_genus_top, ylabn = "",
Facet = "Genus",
Color = "Genus"){
mKphyseq = psmelt(Kphyseq_norm_genus_top)
mKphyseq <- subset(mKphyseq, Abundance > 0)
ggplot(data = mKphyseq,
mapping = aes_string(x = "sample_type", y = "Abundance",
color = Color, fill = Color)) +
geom_violin(fill = NA) +
geom_point(size = 1, alpha = 0.3,
position = position_jitter(width = 0.3)) +
facet_wrap(facets = Facet) + ylab(ylabn) +
scale_y_log10()
}
KphyseqRA = transform_sample_counts(Kphyseq_norm_genus_top, function(x){x / sum(x)})
KphyseqRA1 = transform_sample_counts(Kphyseq_norm_genus, function(x){x / sum(x)})
#library("phyloseq")
#library("ggplot2")
#library("gridExtra")
plot_abundance(Kphyseq_norm_genus_top,"Original Abundances")

plot_abundance(KphyseqRA, "Relative Abundances")

#-----------------------------------------------------------------------------
#subset taxonomy
##Dysbiosis index indicator bacteria
view(Kphyseq@tax_table)
kphyseqDys1 = subset_taxa(KphyseqRA1, Genus == "Bacteroides") #Should be decreased if dysbiotic
kphyseqDys2 = subset_taxa(KphyseqRA1, Genus == "Bifidobacterium") #Should be decreased if dysbiotic
kphyseqDys3 = subset_taxa(KphyseqRA1, Genus == "Clostridium") #Should be decreased if dysbiotic. No C. Hiranonis
kphyseqDys4 = subset_taxa(KphyseqRA1, Genus == "Faecalibacterium") #Should be decreased if dysbiotic
#kphyseqDys5 = subset_taxa(KphyseqRA1, Genus == "Turicibacter") Not identified in this dataset
#kphyseqDys6 = subset_taxa(KphyseqRA1, Genus == "Enterobacteriaceae") #This is family of e.coli. Should be increased in pre-normal if dysbiotic
#p__Proteobacteria; c__Gammaproteobacteria; o__Enterobacteriales; f__Enterobacteriaceae
kphyseqDys7 = subset_taxa(KphyseqRA1, Genus == "Streptococcus") #should be increased in pre-normal if dysbiotic
#Add Lachnospiraceae (family), genus Blautia not identified in this dataset
par(mfrow=c(2,2))
plot_abundance(kphyseqDys1, Facet = "Genus", Color = NULL)

plot_abundance(kphyseqDys2, Facet = "Genus", Color = NULL)

plot_abundance(kphyseqDys3, Facet = "Genus", Color = NULL)

plot_abundance(kphyseqDys4, Facet = "Genus", Color = NULL)

plot_abundance(kphyseqDys7, Facet = "Genus", Color = NULL)

#??subset_taxa
#-----------------------------------------------------------------------------------------------------------------------
# Top N taxa
N <- 10
topg1 <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N]
N2 <- 20
topg2 <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N2]
N3 <- 30
topg3 <- names(sort(taxa_sums(Kphyseq_norm_genus), decreasing = TRUE))[1:N3]
Kphyseq_norm_genus_prop <- transform_sample_counts(Kphyseq_norm_genus, function(x) x / sum(x) )
# Subset object to top N taxa
Kphyseq_norm_genus_prop_top <- prune_taxa(topg2, Kphyseq_norm_genus_prop)
Kphyseq_norm_genus_top <- prune_taxa(topg2, Kphyseq_norm_genus)
plot_abundance = function(Kphyseq_norm_genus_top, ylabn = "",
Facet = "Genus",
Color = "Genus"){
mKphyseq = psmelt(Kphyseq_norm_genus_top)
mKphyseq <- subset(mKphyseq, Abundance > 0)
ggplot(data = mKphyseq,
mapping = aes_string(x = "sample_type", y = "Abundance",
color = Color, fill = Color)) +
geom_violin(fill = NA) +
geom_point(size = 1, alpha = 0.3,
position = position_jitter(width = 0.3)) +
facet_wrap(facets = Facet) + ylab(ylabn) +
theme(axis.text.x = element_text(angle = 45, hjust = 1)) +
scale_y_log10()
}
KphyseqRAg = transform_sample_counts(Kphyseq_norm_genus_top, function(x){x / sum(x)})
KphyseqRAg1 = transform_sample_counts(Kphyseq_norm_genus, function(x){x / sum(x)})
library("phyloseq")
library("ggplot2")
library("gridExtra")
##
## Attaching package: 'gridExtra'
##
## The following object is masked from 'package:dplyr':
##
## combine
plot_abundance(Kphyseq_norm_genus_top,"Original Abundances")

plot_abundance(KphyseqRAg, "Relative Abundances")
